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This page was generated on 2024-05-04 11:40:18 -0400 (Sat, 04 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" 4753
palomino3Windows Server 2022 Datacenterx644.4.0 beta (2024-04-15 r86425 ucrt) -- "Puppy Cup" 4486
lconwaymacOS 12.7.1 Montereyx86_644.4.0 beta (2024-04-14 r86421) -- "Puppy Cup" 4519
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" 4479
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: 2024-05-03 14:00:19 -0400 (Fri, 03 May 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    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    WARNINGS  
kjohnson3macOS 13.6.5 Ventura / arm64see weekly results here

CHECK results for biodbHmdb on kunpeng2


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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: biodbHmdb
Version: 1.10.0
Command: /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library --no-vignettes --timings biodbHmdb_1.10.0.tar.gz
StartedAt: 2024-05-04 05:23:15 -0000 (Sat, 04 May 2024)
EndedAt: 2024-05-04 05:24:51 -0000 (Sat, 04 May 2024)
EllapsedTime: 96.2 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: biodbHmdb.Rcheck
Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library --no-vignettes --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 beta (2024-04-15 r86425)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    gcc (GCC) 10.3.1
    GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* 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++ (GCC) 10.3.1’
* checking installed package size ... NOTE
  installed size is  9.2Mb
  sub-directories of 1Mb or more:
    libs   8.6Mb
* 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 running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 WARNINGs, 3 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/R/R-beta-2024-04-15_r86425/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 10.3.1’
g++ -std=gnu++17 -I"/home/biocbuild/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/include" -DNDEBUG  -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/Rcpp/include' -I'/home/biocbuild/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/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/R/R-beta-2024-04-15_r86425/lib -lR
installing to /home/biocbuild/R/R-beta-2024-04-15_r86425/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 beta (2024-04-15 r86425) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-unknown-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 [2024-05-04 05:24:16.058][biodb::testContext]
biodb.INFO [2024-05-04 05:24:16.061][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-04 05:24:16.062][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-05-04 05:24:16.064][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-04 05:24:16.065][biodb::testContext]
biodb.INFO [2024-05-04 05:24:16.067][biodb::testThat]
biodb.INFO [2024-05-04 05:24:16.068][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2024-05-04 05:24:16.070][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:16.071][biodb::testThat]
biodb.INFO [2024-05-04 05:24:16.199][biodb::testContext]
biodb.INFO [2024-05-04 05:24:16.201][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-04 05:24:16.202][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-05-04 05:24:16.204][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-04 05:24:16.205][biodb::testContext]
biodb.INFO [2024-05-04 05:24:16.216][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-04 05:24:16.218][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-05-04 05:24:16.239][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-04 05:24:16.240][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-04 05:24:16.242][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-04 05:24:16.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.248][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-04 05:24:16.275][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-04 05:24:16.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.281][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-04 05:24:16.282][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-04 05:24:16.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.287][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-04 05:24:16.288][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-04 05:24:16.290][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-04 05:24:16.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.294][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-04 05:24:16.296][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-04 05:24:16.297][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-04 05:24:16.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.302][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-04 05:24:16.304][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-04 05:24:16.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.309][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-04 05:24:16.310][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-04 05:24:16.312][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-04 05:24:16.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.317][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-04 05:24:16.319][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-04 05:24:16.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.324][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-04 05:24:16.325][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-04 05:24:16.327][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-04 05:24:16.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.332][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-04 05:24:16.333][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-04 05:24:16.335][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-04 05:24:16.336][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-04 05:24:16.337][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-04 05:24:16.339][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-04 05:24:16.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.344][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-04 05:24:16.345][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-04 05:24:16.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.350][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-04 05:24:16.352][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-04 05:24:16.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.357][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-04 05:24:16.358][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-04 05:24:16.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.364][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-04 05:24:16.365][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-04 05:24:16.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.370][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-04 05:24:16.372][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-04 05:24:16.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.377][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-04 05:24:16.378][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-04 05:24:16.383][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-04 05:24:16.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.389][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-04 05:24:16.390][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-04 05:24:16.391][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-04 05:24:16.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.400][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-04 05:24:16.448][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.471][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-04 05:24:16.473][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.475][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:16.476][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.486][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.488][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.489][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.490][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-04 05:24:16.492][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:16.493][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.495][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-04 05:24:16.496][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:16.497][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.499][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.500][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-04 05:24:16.500][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-04 05:24:16.500][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-04 05:24:16.500][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-04 05:24:16.500][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-04 05:24:16.501][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:16.503][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:16.504][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:16.505][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:16.507][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:16.508][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:16.509][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.510][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.512][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:16.513][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:16.514][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.516][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.517][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-04 05:24:16.520][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.521][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-04 05:24:16.522][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.524][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:16.525][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.526][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.528][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.529][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.530][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-04 05:24:16.532][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:16.533][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.535][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-04 05:24:16.536][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:16.537][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.539][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.540][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-04 05:24:16.540][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-04 05:24:16.540][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-04 05:24:16.540][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-04 05:24:16.540][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-04 05:24:16.541][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:16.543][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:16.544][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:16.545][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:16.547][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:16.548][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:16.549][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.550][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.552][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:16.553][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:16.554][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.556][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.557][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-04 05:24:16.560][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.561][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-04 05:24:16.562][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.564][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:16.565][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.567][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.568][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.569][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.571][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-04 05:24:16.572][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:16.573][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.575][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-04 05:24:16.576][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:16.578][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.579][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.580][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.582][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:16.583][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:16.584][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:16.586][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:16.587][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:16.588][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:16.590][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.591][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.592][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:16.593][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:16.595][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.596][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.598][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-04 05:24:16.600][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.602][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-04 05:24:16.603][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.604][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:16.606][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.607][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.609][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.610][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.611][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-04 05:24:16.613][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:16.614][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.616][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-04 05:24:16.617][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:16.618][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.620][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:16.621][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.622][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:16.624][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:16.625][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:16.626][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:16.628][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:16.629][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:16.630][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:16.632][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.633][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:16.634][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:16.636][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:16.637][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:16.642][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-04 05:24:16.644][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.670][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[2024-05-04 05:24:16.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.676][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[2024-05-04 05:24:16.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.741][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[2024-05-04 05:24:16.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.747][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[2024-05-04 05:24:16.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.753][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[2024-05-04 05:24:16.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.759][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[2024-05-04 05:24:16.761][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-04 05:24:16.767][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-04 05:24:16.769][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-04 05:24:16.771][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-04 05:24:16.773][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-04 05:24:16.775][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-04 05:24:16.777][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-04 05:24:16.779][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-04 05:24:16.781][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-04 05:24:16.783][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-04 05:24:16.785][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-04 05:24:16.787][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-04 05:24:16.789][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-04 05:24:16.791][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-04 05:24:16.793][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-04 05:24:16.795][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-04 05:24:16.797][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-04 05:24:16.799][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-04 05:24:16.801][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-04 05:24:16.803][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-04 05:24:16.805][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-04 05:24:16.807][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-04 05:24:16.809][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-04 05:24:16.811][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-04 05:24:16.813][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-04 05:24:16.815][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-04 05:24:16.817][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-04 05:24:16.819][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-04 05:24:16.821][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-04 05:24:16.823][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-04 05:24:16.825][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-04 05:24:16.827][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-04 05:24:16.829][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-04 05:24:16.831][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-04 05:24:16.833][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-04 05:24:16.835][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-04 05:24:16.837][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-04 05:24:16.839][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-04 05:24:16.841][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-04 05:24:16.843][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-04 05:24:16.845][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-04 05:24:16.847][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-04 05:24:16.849][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-04 05:24:16.851][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-04 05:24:16.853][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-04 05:24:16.855][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-04 05:24:16.857][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-04 05:24:16.859][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-04 05:24:16.861][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-04 05:24:16.863][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-04 05:24:16.865][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-04 05:24:16.868][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-04 05:24:16.870][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-04 05:24:16.871][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-04 05:24:16.873][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-04 05:24:16.875][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-04 05:24:16.878][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-04 05:24:16.880][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-04 05:24:16.882][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-04 05:24:16.884][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-04 05:24:16.886][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-04 05:24:16.888][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-04 05:24:16.890][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-04 05:24:16.892][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-04 05:24:16.894][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-04 05:24:16.896][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-04 05:24:16.898][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-04 05:24:16.900][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-04 05:24:16.902][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-04 05:24:16.904][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-04 05:24:16.906][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-04 05:24:16.908][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-04 05:24:16.910][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-04 05:24:16.912][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-04 05:24:16.914][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-04 05:24:16.916][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-04 05:24:16.918][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-04 05:24:16.920][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-04 05:24:16.922][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-04 05:24:16.924][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-04 05:24:16.926][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-04 05:24:16.928][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-04 05:24:16.930][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-04 05:24:16.938][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-04 05:24:16.941][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-04 05:24:16.945][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-04 05:24:16.946][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.949][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:16.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:16.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:16.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:16.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:16.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:16.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:16.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:16.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:16.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:16.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:16.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:16.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:16.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.016][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[2024-05-04 05:24:17.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.034][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[2024-05-04 05:24:17.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.051][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[2024-05-04 05:24:17.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:17.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:17.114][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-04 05:24:17.128][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:17.131][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:17.132][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-04 05:24:17.134][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:17.135][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:17.136][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:17.138][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-04 05:24:17.139][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:17.141][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:17.142][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-04 05:24:17.143][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:17.145][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:17.146][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-04 05:24:17.147][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-04 05:24:17.149][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-04 05:24:17.150][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:17.152][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-04 05:24:17.152][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-04 05:24:17.152][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-04 05:24:17.153][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-04 05:24:17.154][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:17.156][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:17.157][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:17.158][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:17.159][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:17.161][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:17.162][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-04 05:24:17.162][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-04 05:24:17.163][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:17.165][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:17.166][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:17.167][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:17.176][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-04 05:24:17.178][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-04 05:24:17.180][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-04 05:24:17.182][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-04 05:24:17.185][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-04 05:24:17.216][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:17.217][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-04 05:24:17.223][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:17.279][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-04 05:24:17.284][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:17.286][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:17.288][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-04 05:24:17.290][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-04 05:24:17.291][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-04 05:24:17.291][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-04 05:24:17.293][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:17.294][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:17.295][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-04 05:24:17.296][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-04 05:24:17.298][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:17.324][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-04 05:24:17.326][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:17.327][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:17.329][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-04 05:24:17.331][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:17.332][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-04 05:24:17.343][biodb::testThat]
biodb.INFO [2024-05-04 05:24:17.345][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-05-04 05:24:17.346][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:17.347][biodb::testThat]
biodb.TRACE[2024-05-04 05:24:17.354][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-05-04 05:24:17.356][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-04 05:24:17.361][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-04 05:24:17.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:17.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:17.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:17.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:17.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:17.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:17.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-04 05:24:17.399][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:17.401][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:17.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.403][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:17.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:17.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.428][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:17.430][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:17.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.432][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.470][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:17.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:17.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.476][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:17.478][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:17.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.480][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.482][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:17.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:17.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.488][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:17.490][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:17.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.492][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.494][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:17.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:17.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.511][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:17.513][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:17.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.516][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:17.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:17.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.523][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:17.525][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:17.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.528][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:17.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:17.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.536][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:17.537][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:17.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.540][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.542][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:17.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:17.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.548][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:17.550][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:17.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.553][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.555][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:17.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:17.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.561][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:17.563][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:17.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.566][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.568][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:17.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:17.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.573][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:17.575][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:17.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.578][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.580][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:17.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:17.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.585][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:17.587][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:17.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.590][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.591][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:17.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:17.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.597][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:17.599][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:17.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.601][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.603][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:17.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:17.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.609][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:17.611][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:17.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.613][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:17.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:17.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.621][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:17.623][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:17.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.625][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:17.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:17.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.633][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:17.635][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:17.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.637][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:17.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:17.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.645][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:17.646][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:17.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.649][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.651][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:17.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:17.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.656][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:17.658][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:17.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.660][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.663][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:17.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:17.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.669][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-04 05:24:17.670][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:17.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.673][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.675][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-04 05:24:17.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:17.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:17.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:17.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:17.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:17.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:17.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:17.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.756][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:17.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:17.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.761][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:17.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:17.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.767][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:17.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:17.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.772][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:17.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:17.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.778][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:17.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:17.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.784][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:17.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:17.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:17.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:17.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:17.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:17.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:17.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:17.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:17.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:17.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:17.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:17.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:17.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:17.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.823][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:17.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:17.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.829][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:17.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:17.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.835][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:17.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:17.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.840][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:17.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:17.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.846][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:17.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:17.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.852][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:17.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:17.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.857][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:17.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:17.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.863][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:17.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:17.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.869][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:17.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:17.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.875][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:17.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:17.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.880][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:17.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:17.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.886][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:17.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:17.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.892][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:17.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:17.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.898][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:17.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:17.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:17.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:17.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:17.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:17.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:17.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:17.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:17.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:17.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:17.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:17.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:17.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:17.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:17.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:17.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.955][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:17.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:17.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.961][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:17.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:17.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.967][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:17.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:17.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:17.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:17.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:17.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:17.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:17.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:17.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.991][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:17.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:17.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:17.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:17.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:17.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.009][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.015][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.021][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.027][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.033][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.038][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.044][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:18.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:18.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.051][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:18.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:18.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.056][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:18.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:18.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.063][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-04 05:24:18.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:18.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:18.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:18.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:18.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:18.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.081][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:18.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:18.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.087][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-04 05:24:18.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:18.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.119][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.144][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.149][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.155][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.160][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.172][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:18.211][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-04 05:24:18.215][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-04 05:24:18.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-04 05:24:18.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.220][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-04 05:24:18.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-04 05:24:18.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.226][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-04 05:24:18.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-04 05:24:18.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.232][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-04 05:24:18.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-04 05:24:18.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.267][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.313][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.319][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.324][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:18.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.365][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.366][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.369][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:18.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:18.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.386][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.392][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.398][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.403][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.404][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.407][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.408][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:18.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:18.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:18.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:18.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:18.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:18.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:18.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.443][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:18.444][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:18.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.447][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:18.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:18.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.465][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.470][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.476][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.481][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.482][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.485][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.486][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:18.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:18.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:18.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:18.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:18.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:18.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:18.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.520][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:18.522][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:18.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.525][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:18.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:18.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.543][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:18.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:18.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.557][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:18.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:18.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.563][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:18.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:18.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.569][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:18.571][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:18.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.574][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.576][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:18.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:18.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.593][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.605][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.611][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.613][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.616][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:18.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:18.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.634][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:18.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:18.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.640][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:18.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:18.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.646][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:18.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:18.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.652][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:18.654][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:18.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.657][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.658][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:18.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:18.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.676][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:18.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:18.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.682][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:18.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:18.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.689][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:18.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:18.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.695][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:18.697][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:18.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.699][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.701][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:18.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:18.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.718][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:18.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:18.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.725][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:18.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:18.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.731][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:18.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:18.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.737][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:18.739][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:18.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.742][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.743][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:18.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:18.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:18.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:18.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:18.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:18.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:18.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:18.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.789][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:18.791][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:18.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.794][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:18.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:18.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.814][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:18.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:18.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.821][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:18.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:18.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.827][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:18.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:18.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.833][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:18.835][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:18.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.837][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.839][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:18.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:18.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.856][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:18.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:18.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.862][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:18.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:18.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.869][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:18.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:18.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.875][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:18.876][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:18.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.879][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.881][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:18.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:18.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.898][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:18.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:18.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.904][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:18.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:18.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.910][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:18.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:18.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.916][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:18.918][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:18.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.921][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.922][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:18.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:18.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.940][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:18.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:18.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:18.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:18.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.952][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:18.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:18.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.958][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:18.960][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:18.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.963][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.964][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:18.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:18.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:18.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:18.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:18.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:18.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:18.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:18.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:19.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:19.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.009][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:19.010][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:19.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.013][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:19.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:19.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.052][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.056][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.075][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.082][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.088][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.095][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.097][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.100][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.101][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.120][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:19.121][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:19.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.125][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.132][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.133][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.136][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.143][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.144][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.147][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.154][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.159][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.165][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.167][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.169][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.176][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.178][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.180][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.187][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.188][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.191][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.198][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:19.200][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:19.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.203][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.209][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:19.211][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:19.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.214][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.228][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:19.230][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:19.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.232][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.239][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:19.241][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:19.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.243][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.250][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.251][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.254][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.260][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.262][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.265][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.272][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.274][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.276][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.283][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:19.285][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:19.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.288][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.294][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.296][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.299][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.306][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:19.307][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:19.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.310][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.317][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:19.319][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:19.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.322][ef$get] fields variable is a list.
biodb.INFO [2024-05-04 05:24:19.332][biodb::testThat]
biodb.INFO [2024-05-04 05:24:19.334][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-05-04 05:24:19.335][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:19.337][biodb::testThat]
biodb.DEBUG[2024-05-04 05:24:19.357][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-05-04 05:24:19.367][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-04 05:24:19.373][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:19.375][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-04 05:24:19.378][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-05-04 05:24:19.380][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-04 05:24:19.384][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-05-04 05:24:19.386][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-04 05:24:19.420][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-04 05:24:19.422][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-04 05:24:19.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:19.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:19.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:19.442][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:19.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:19.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:19.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-04 05:24:19.451][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:19.453][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:19.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.455][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:19.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:19.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.463][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:19.464][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:19.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.467][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.469][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:19.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:19.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.474][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.476][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.479][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.481][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.486][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.488][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.491][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.493][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.498][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.502][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.510][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.512][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.514][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.522][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.524][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.527][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.529][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.534][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.536][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.539][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.541][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.546][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.548][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.551][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.553][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.558][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.560][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.562][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.565][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.570][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:19.572][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:19.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.574][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.576][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:19.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:19.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.582][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:19.583][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:19.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.586][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:19.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:19.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.594][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.595][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.598][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.606][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.607][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.610][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.618][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:19.619][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:19.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.622][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.629][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:19.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:19.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.652][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:19.654][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:19.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.657][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.659][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:19.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:19.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.666][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:19.668][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:19.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.670][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.673][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:19.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:19.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.679][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-04 05:24:19.681][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:19.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.684][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.686][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-04 05:24:19.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:19.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:19.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:19.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:19.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:19.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:19.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:19.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.712][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.718][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.724][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:19.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.730][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.737][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.743][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:19.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:19.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:19.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.786][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.792][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.798][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:19.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.804][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.811][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.817][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:19.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.824][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:19.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:19.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.830][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:19.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:19.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.836][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:19.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:19.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.843][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:19.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:19.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.849][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:19.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:19.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.855][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:19.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:19.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.869][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:19.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:19.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.876][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:19.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:19.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.882][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:19.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:19.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:19.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:19.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:19.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:19.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:19.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:19.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.911][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:19.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.922][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.928][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.934][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:19.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:19.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:19.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:19.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:19.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:19.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:19.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:19.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.975][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.980][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.986][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:19.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.992][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:19.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:19.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:19.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:19.998][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:19.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.003][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.009][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:20.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:20.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.015][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:20.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:20.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.021][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:20.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:20.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.026][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-04 05:24:20.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:20.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:20.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:20.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.038][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:20.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:20.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:20.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:20.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.049][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-04 05:24:20.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:20.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.062][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.081][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.087][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.093][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:20.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:20.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.099][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:20.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:20.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:20.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:20.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.111][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:20.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:20.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:20.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:20.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:20.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:20.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:20.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:20.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:20.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:20.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:20.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:20.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:20.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:20.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.151][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-04 05:24:20.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-05-04 05:24:20.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-05-04 05:24:20.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-05-04 05:24:20.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-05-04 05:24:20.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-05-04 05:24:20.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-05-04 05:24:20.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-04 05:24:20.180][biodb::testThat]
biodb.INFO [2024-05-04 05:24:20.182][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-05-04 05:24:20.183][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:20.184][biodb::testThat]
biodb.TRACE[2024-05-04 05:24:20.189][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.190][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.193][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.195][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-05-04 05:24:20.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.255][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-05-04 05:24:20.257][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-05-04 05:24:20.258][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-04 05:24:20.260][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-04 05:24:20.262][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.272][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.274][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-04 05:24:20.276][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.278][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-04 05:24:20.280][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-04 05:24:20.281][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-04 05:24:20.283][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-04 05:24:20.284][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-04 05:24:20.286][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-04 05:24:20.287][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-04 05:24:20.290][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.314][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-04 05:24:20.315][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-04 05:24:20.317][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-05-04 05:24:20.333][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:20.335][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:20.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.338][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.339][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-05-04 05:24:20.356][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:20.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:20.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.362][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:20.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:20.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.368][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:20.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:20.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.378][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[2024-05-04 05:24:20.466][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-04 05:24:20.468][private$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[2024-05-04 05:24:20.469][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-05-04 05:24:20.490][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.493][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.495][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-04 05:24:20.497][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.499][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-04 05:24:20.522][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-04 05:24:20.523][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-04 05:24:20.525][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-04 05:24:20.526][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-04 05:24:20.528][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-04 05:24:20.529][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-04 05:24:20.532][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:20.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:20.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.538][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:20.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:20.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.544][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:20.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:20.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.550][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:20.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:20.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.557][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-04 05:24:20.558][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-04 05:24:20.559][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-05-04 05:24:20.577][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.579][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.582][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.584][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-05-04 05:24:20.602][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.608][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.614][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.625][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-05-04 05:24:20.627][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-05-04 05:24:20.629][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-05-04 05:24:20.630][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-05-04 05:24:20.633][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.635][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.637][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-04 05:24:20.639][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.641][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-04 05:24:20.642][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-04 05:24:20.644][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-04 05:24:20.645][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-04 05:24:20.647][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-04 05:24:20.648][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-04 05:24:20.649][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-04 05:24:20.660][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.670][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.676][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.681][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:20.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.687][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-04 05:24:20.688][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-04 05:24:20.690][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-05-04 05:24:20.710][biodb::testThat]
biodb.INFO [2024-05-04 05:24:20.711][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-05-04 05:24:20.713][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:20.714][biodb::testThat]
biodb.TRACE[2024-05-04 05:24:20.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.740][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.759][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-05-04 05:24:20.761][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-04 05:24:20.762][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-04 05:24:20.765][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.767][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.769][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-04 05:24:20.771][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:20.772][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-04 05:24:20.774][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-04 05:24:20.776][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-04 05:24:20.777][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-04 05:24:20.778][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-04 05:24:20.780][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-04 05:24:20.781][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-04 05:24:20.784][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.795][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.801][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:20.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:20.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:20.807][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-04 05:24:20.808][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-05-04 05:24:20.828][biodb::testThat]
biodb.INFO [2024-05-04 05:24:20.830][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-05-04 05:24:20.831][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:20.833][biodb::testThat]
biodb.TRACE[2024-05-04 05:24:20.872][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-04 05:24:20.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-04 05:24:20.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.878][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-04 05:24:20.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-04 05:24:20.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.884][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-04 05:24:20.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-04 05:24:20.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.890][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-04 05:24:20.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-04 05:24:20.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.958][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-04 05:24:20.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-04 05:24:20.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.965][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-04 05:24:20.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-04 05:24:20.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.971][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-04 05:24:20.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-04 05:24:20.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:20.977][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-04 05:24:20.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-04 05:24:20.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:20.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-04 05:24:20.991][biodb::testThat]
biodb.INFO [2024-05-04 05:24:20.993][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-05-04 05:24:20.994][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:20.996][biodb::testThat]
biodb.INFO [2024-05-04 05:24:21.007][biodb::testThat]
biodb.INFO [2024-05-04 05:24:21.008][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-05-04 05:24:21.010][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:21.011][biodb::testThat]
biodb.INFO [2024-05-04 05:24:21.023][biodb::testThat]
biodb.INFO [2024-05-04 05:24:21.024][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-05-04 05:24:21.026][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:21.027][biodb::testThat]
biodb.DEBUG[2024-05-04 05:24:21.033][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-05-04 05:24:38.147][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-05-04 05:24:38.691][biodb::testThat]
biodb.INFO [2024-05-04 05:24:38.692][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-05-04 05:24:38.694][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:38.695][biodb::testThat]
biodb.DEBUG[2024-05-04 05:24:43.491][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-05-04 05:24:43.984][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:44.002][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:44.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.005][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.006][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:44.008][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:44.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.010][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.012][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:44.013][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:44.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.016][ef$get] fields variable is a list.
biodb.INFO [2024-05-04 05:24:44.018][biodb::testThat]
biodb.INFO [2024-05-04 05:24:44.019][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-05-04 05:24:44.020][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:44.021][biodb::testThat]
biodb.DEBUG[2024-05-04 05:24:44.024][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-05-04 05:24:44.092][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-04 05:24:44.094][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:44.096][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-04 05:24:44.120][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-05-04 05:24:44.121][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-04 05:24:44.123][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-04 05:24:44.124][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-04 05:24:44.133][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:44.135][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-04 05:24:44.137][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-04 05:24:44.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:44.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:44.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:44.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.152][FUN] Functions in observer BiodbConfig: [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[2024-05-04 05:24:44.154][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:44.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:44.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.160][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:44.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:44.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:44.200][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-05-04 05:24:44.201][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-05-04 05:24:44.223][biodb::testThat]
biodb.INFO [2024-05-04 05:24:44.225][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-05-04 05:24:44.226][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:44.228][biodb::testThat]
biodb.DEBUG[2024-05-04 05:24:44.238][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-05-04 05:24:44.240][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-05-04 05:24:44.242][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-04 05:24:44.244][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:44.246][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-04 05:24:44.249][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-05-04 05:24:44.251][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-04 05:24:44.253][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-04 05:24:44.254][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-04 05:24:44.256][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:44.258][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-04 05:24:44.259][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-04 05:24:44.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:44.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:44.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:44.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.274][FUN] Functions in observer BiodbConfig: [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[2024-05-04 05:24:44.277][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:44.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:44.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.319][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:44.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:44.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:44.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:44.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:44.356][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-05-04 05:24:44.358][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-05-04 05:24:44.359][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-05-04 05:24:44.375][biodb::testThat]
biodb.INFO [2024-05-04 05:24:44.377][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-05-04 05:24:44.378][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:44.379][biodb::testThat]
biodb.INFO [2024-05-04 05:24:44.409][biodb::testThat]
biodb.INFO [2024-05-04 05:24:44.411][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-05-04 05:24:44.412][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:44.413][biodb::testThat]
biodb.DEBUG[2024-05-04 05:24:44.416][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:44.418][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:44.420][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-04 05:24:44.422][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:44.424][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-04 05:24:44.426][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-04 05:24:44.427][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-04 05:24:44.428][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-04 05:24:44.430][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-05-04 05:24:44.440][biodb::testThat]
biodb.INFO [2024-05-04 05:24:44.441][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-05-04 05:24:44.442][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:44.444][biodb::testThat]
biodb.DEBUG[2024-05-04 05:24:44.447][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:44.449][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:44.451][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-04 05:24:44.453][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:44.454][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-04 05:24:44.456][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-04 05:24:44.458][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-04 05:24:44.459][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-04 05:24:44.460][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-05-04 05:24:44.482][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:44.484][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:44.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.487][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.489][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:44.490][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:44.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.493][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:44.495][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:44.496][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:44.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:44.499][ef$get] fields variable is a list.
biodb.INFO [2024-05-04 05:24:44.501][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-04 05:24:44.503][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-04 05:24:44.515][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-04 05:24:44.516][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-04 05:24:44.518][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:44.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:44.520][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.523][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.524][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.INFO [2024-05-04 05:24:44.530][biodb::testContext]
biodb.INFO [2024-05-04 05:24:44.531][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-04 05:24:44.533][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-05-04 05:24:44.534][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-04 05:24:44.536][biodb::testContext]
biodb.INFO [2024-05-04 05:24:44.541][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-04 05:24:44.544][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-05-04 05:24:44.549][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-04 05:24:44.550][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-04 05:24:44.552][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-04 05:24:44.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.558][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-04 05:24:44.560][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-04 05:24:44.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.566][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-04 05:24:44.567][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-04 05:24:44.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.573][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-04 05:24:44.574][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-04 05:24:44.576][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-04 05:24:44.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.581][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-04 05:24:44.582][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-04 05:24:44.584][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-04 05:24:44.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.589][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-04 05:24:44.591][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-04 05:24:44.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.596][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-04 05:24:44.598][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-04 05:24:44.599][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-04 05:24:44.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.604][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-04 05:24:44.606][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-04 05:24:44.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.612][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-04 05:24:44.613][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-04 05:24:44.615][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-04 05:24:44.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.620][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-04 05:24:44.622][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-04 05:24:44.623][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-04 05:24:44.625][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-04 05:24:44.626][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-04 05:24:44.628][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-04 05:24:44.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.641][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-04 05:24:44.643][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-04 05:24:44.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.648][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-04 05:24:44.650][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-04 05:24:44.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.655][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-04 05:24:44.656][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-04 05:24:44.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.662][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-04 05:24:44.663][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-04 05:24:44.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.669][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-04 05:24:44.670][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-04 05:24:44.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.676][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-04 05:24:44.677][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-04 05:24:44.682][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-04 05:24:44.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.687][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-04 05:24:44.689][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-04 05:24:44.690][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-04 05:24:44.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.696][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-04 05:24:44.699][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.700][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-04 05:24:44.701][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.703][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:44.704][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.706][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.707][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.709][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.710][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-04 05:24:44.712][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:44.713][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.715][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-04 05:24:44.716][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:44.717][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.719][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.720][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-04 05:24:44.720][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-04 05:24:44.720][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-04 05:24:44.720][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-04 05:24:44.720][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-04 05:24:44.722][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:44.723][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:44.725][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:44.726][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:44.727][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:44.729][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:44.730][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.732][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.733][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:44.734][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:44.736][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.737][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.739][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-04 05:24:44.742][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.743][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-04 05:24:44.745][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.746][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:44.748][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.749][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.751][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.752][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.754][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-04 05:24:44.755][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:44.756][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.758][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-04 05:24:44.759][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:44.761][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.762][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.764][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-04 05:24:44.764][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-04 05:24:44.764][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-04 05:24:44.764][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-04 05:24:44.764][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-04 05:24:44.765][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:44.767][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:44.768][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:44.769][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:44.771][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:44.772][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:44.773][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.775][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.776][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:44.778][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:44.779][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.780][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.782][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-04 05:24:44.785][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.786][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-04 05:24:44.788][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.789][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:44.791][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.792][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.794][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.804][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.806][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-04 05:24:44.808][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:44.810][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.812][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-04 05:24:44.814][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:44.815][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.817][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.818][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.820][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:44.821][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:44.823][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:44.824][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:44.826][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:44.827][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:44.828][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.830][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.831][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:44.833][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:44.834][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.836][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.838][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-04 05:24:44.840][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.842][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-04 05:24:44.843][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.845][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:44.846][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.848][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.849][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.851][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.852][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-04 05:24:44.854][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:44.855][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.856][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-04 05:24:44.858][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:44.859][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.861][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:44.862][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.864][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:44.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:44.867][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:44.868][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:44.870][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:44.871][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:44.872][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:44.874][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.875][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:44.876][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:44.878][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:44.879][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:44.881][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-04 05:24:44.883][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.956][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[2024-05-04 05:24:44.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:44.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:44.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:44.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:44.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:44.998][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[2024-05-04 05:24:45.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.016][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-04 05:24:45.018][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-04 05:24:45.021][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-04 05:24:45.023][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-04 05:24:45.025][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-04 05:24:45.027][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-04 05:24:45.029][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-04 05:24:45.032][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-04 05:24:45.034][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-04 05:24:45.036][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-04 05:24:45.038][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-04 05:24:45.040][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-04 05:24:45.042][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-04 05:24:45.045][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-04 05:24:45.047][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-04 05:24:45.049][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-04 05:24:45.051][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-04 05:24:45.053][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-04 05:24:45.055][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-04 05:24:45.057][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-04 05:24:45.060][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-04 05:24:45.062][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-04 05:24:45.064][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-04 05:24:45.066][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-04 05:24:45.069][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-04 05:24:45.071][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-04 05:24:45.074][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-04 05:24:45.076][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-04 05:24:45.078][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-04 05:24:45.081][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-04 05:24:45.083][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-04 05:24:45.085][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-04 05:24:45.087][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-04 05:24:45.090][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-04 05:24:45.092][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-04 05:24:45.094][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-04 05:24:45.096][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-04 05:24:45.098][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-04 05:24:45.101][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-04 05:24:45.103][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-04 05:24:45.105][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-04 05:24:45.107][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-04 05:24:45.109][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-04 05:24:45.111][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-04 05:24:45.114][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-04 05:24:45.116][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-04 05:24:45.118][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-04 05:24:45.120][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-04 05:24:45.122][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-04 05:24:45.125][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-04 05:24:45.127][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-04 05:24:45.129][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-04 05:24:45.146][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-04 05:24:45.149][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-04 05:24:45.151][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-04 05:24:45.153][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-04 05:24:45.155][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-04 05:24:45.157][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-04 05:24:45.160][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-04 05:24:45.162][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-04 05:24:45.164][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-04 05:24:45.166][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-04 05:24:45.168][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-04 05:24:45.170][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-04 05:24:45.172][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-04 05:24:45.174][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-04 05:24:45.176][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-04 05:24:45.178][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-04 05:24:45.181][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-04 05:24:45.183][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-04 05:24:45.185][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-04 05:24:45.187][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-04 05:24:45.189][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-04 05:24:45.191][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-04 05:24:45.193][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-04 05:24:45.195][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-04 05:24:45.197][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-04 05:24:45.199][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-04 05:24:45.201][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-04 05:24:45.203][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-04 05:24:45.205][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-04 05:24:45.207][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-04 05:24:45.210][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-04 05:24:45.212][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-04 05:24:45.215][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-04 05:24:45.216][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-04 05:24:45.217][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.220][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.300][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[2024-05-04 05:24:45.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:45.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:45.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.381][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.DEBUG[2024-05-04 05:24:45.384][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-04 05:24:45.385][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:45.388][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:45.390][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-04 05:24:45.392][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:45.393][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:45.394][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:45.396][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-04 05:24:45.397][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:45.399][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:45.400][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-04 05:24:45.401][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:45.403][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:45.404][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-04 05:24:45.406][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-04 05:24:45.407][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-04 05:24:45.409][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:45.410][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-04 05:24:45.410][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-04 05:24:45.410][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-04 05:24:45.411][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-04 05:24:45.413][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:45.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:45.415][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:45.417][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:45.418][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:45.420][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:45.421][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-04 05:24:45.421][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-04 05:24:45.423][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:45.424][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:45.425][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:45.427][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:45.429][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-04 05:24:45.431][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-04 05:24:45.433][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-04 05:24:45.435][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-04 05:24:45.438][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-04 05:24:45.442][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:45.443][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-04 05:24:45.453][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:45.455][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-04 05:24:45.457][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:45.458][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:45.460][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-04 05:24:45.462][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-04 05:24:45.463][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-04 05:24:45.463][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-04 05:24:45.464][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:45.466][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:45.467][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-04 05:24:45.468][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-04 05:24:45.470][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:45.472][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-04 05:24:45.473][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:45.475][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:45.477][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-04 05:24:45.478][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:45.480][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-04 05:24:45.482][biodb::testThat]
biodb.INFO [2024-05-04 05:24:45.483][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-05-04 05:24:45.484][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:45.485][biodb::testThat]
biodb.DEBUG[2024-05-04 05:24:45.491][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:45.493][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:45.494][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-04 05:24:45.496][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:45.498][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-04 05:24:45.500][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-04 05:24:45.501][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-04 05:24:45.502][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-04 05:24:45.504][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-04 05:24:45.508][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-05-04 05:24:45.514][biodb::testThat]
biodb.INFO [2024-05-04 05:24:45.516][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-05-04 05:24:45.517][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:45.518][biodb::testThat]
biodb.DEBUG[2024-05-04 05:24:45.521][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-05-04 05:24:45.522][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-04 05:24:45.525][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:45.527][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-04 05:24:45.529][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-05-04 05:24:45.531][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-04 05:24:45.535][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-05-04 05:24:45.536][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-04 05:24:45.538][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-04 05:24:45.540][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-04 05:24:45.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:45.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:45.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:45.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:45.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:45.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:45.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-04 05:24:45.559][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:45.560][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:45.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.563][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:45.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:45.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.571][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:45.572][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:45.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.575][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.576][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:45.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:45.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.582][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:45.584][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:45.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.586][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.588][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:45.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:45.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.594][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:45.596][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:45.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.598][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.600][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:45.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:45.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.615][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:45.617][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:45.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.620][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:45.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:45.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.628][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:45.629][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:45.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.632][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:45.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:45.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.639][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:45.641][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:45.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.643][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.645][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:45.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:45.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.651][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:45.652][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:45.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.655][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.657][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:45.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:45.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.663][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:45.664][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:45.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.667][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:45.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:45.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.675][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:45.676][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:45.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.679][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.681][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:45.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:45.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.687][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:45.688][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:45.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.691][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:45.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:45.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.698][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:45.700][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:45.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.702][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:45.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:45.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.710][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:45.711][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:45.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.714][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:45.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:45.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.722][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:45.723][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:45.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.726][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:45.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:45.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.733][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:45.735][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:45.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.737][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:45.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:45.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.745][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:45.747][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:45.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.749][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.751][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:45.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:45.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.757][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:45.758][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:45.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.769][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.771][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:45.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:45.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.777][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-04 05:24:45.778][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:45.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.781][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.783][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-04 05:24:45.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:45.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:45.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:45.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:45.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:45.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:45.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:45.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.806][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:45.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:45.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.812][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:45.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:45.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.818][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:45.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:45.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.824][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:45.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:45.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.830][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:45.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:45.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.836][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:45.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:45.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:45.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:45.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:45.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:45.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:45.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:45.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:45.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:45.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:45.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:45.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:45.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:45.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.877][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:45.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:45.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.883][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:45.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:45.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.889][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:45.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:45.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.894][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:45.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:45.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.900][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:45.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:45.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.906][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:45.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:45.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.911][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:45.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:45.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.925][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:45.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:45.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.931][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:45.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:45.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.937][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:45.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:45.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.942][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:45.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:45.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.948][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:45.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:45.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.954][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:45.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:45.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.960][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:45.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:45.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.966][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:45.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:45.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:45.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:45.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:45.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:45.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:45.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:45.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:45.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:45.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:45.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:45.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:45.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:45.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.000][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:46.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:46.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.006][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:46.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:46.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.012][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:46.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:46.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.017][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:46.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:46.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:46.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:46.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:46.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:46.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:46.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:46.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:46.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:46.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:46.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:46.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.052][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:46.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:46.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.058][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:46.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:46.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.064][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:46.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:46.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.069][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:46.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:46.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.084][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:46.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:46.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.091][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:46.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:46.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.096][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:46.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:46.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.102][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:46.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:46.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.107][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:46.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:46.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.113][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:46.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:46.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.118][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-04 05:24:46.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:46.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:46.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:46.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:46.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:46.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:46.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:46.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.141][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-04 05:24:46.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:46.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:46.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:46.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:46.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:46.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:46.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:46.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:46.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:46.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.170][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:46.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:46.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.176][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:46.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:46.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.181][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:46.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:46.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:46.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:46.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.193][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:46.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:46.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:46.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:46.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:46.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:46.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:46.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:46.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:46.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:46.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:46.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:46.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:46.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:46.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:46.244][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-05-04 05:24:46.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:46.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:46.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:46.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:46.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:46.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:46.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:46.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:46.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-04 05:24:46.269][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-04 05:24:46.271][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-04 05:24:46.272][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-04 05:24:46.274][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-04 05:24:46.275][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.277][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.280][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-04 05:24:46.286][biodb::testContext]
biodb.INFO [2024-05-04 05:24:46.287][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-04 05:24:46.289][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-05-04 05:24:46.290][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-04 05:24:46.292][biodb::testContext]
biodb.INFO [2024-05-04 05:24:46.296][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-04 05:24:46.299][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-05-04 05:24:46.303][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-04 05:24:46.305][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-04 05:24:46.306][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-04 05:24:46.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.311][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-04 05:24:46.312][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-04 05:24:46.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.317][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-04 05:24:46.319][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-04 05:24:46.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.324][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-04 05:24:46.325][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-04 05:24:46.326][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-04 05:24:46.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.331][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-04 05:24:46.333][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-04 05:24:46.334][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-04 05:24:46.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.339][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-04 05:24:46.340][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-04 05:24:46.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.345][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-04 05:24:46.347][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-04 05:24:46.348][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-04 05:24:46.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.353][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-04 05:24:46.354][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-04 05:24:46.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.359][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-04 05:24:46.361][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-04 05:24:46.362][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-04 05:24:46.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.367][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-04 05:24:46.368][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-04 05:24:46.370][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-04 05:24:46.371][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-04 05:24:46.372][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-04 05:24:46.374][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-04 05:24:46.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.387][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-04 05:24:46.389][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-04 05:24:46.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.394][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-04 05:24:46.395][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-04 05:24:46.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.400][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-04 05:24:46.401][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-04 05:24:46.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.406][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-04 05:24:46.408][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-04 05:24:46.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.413][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-04 05:24:46.414][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-04 05:24:46.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.419][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-04 05:24:46.420][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-04 05:24:46.425][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-04 05:24:46.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.431][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-04 05:24:46.432][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-04 05:24:46.434][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-04 05:24:46.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.439][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-04 05:24:46.441][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.443][self$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[2024-05-04 05:24:46.444][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.445][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:46.447][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.448][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.449][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.451][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.452][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-04 05:24:46.453][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:46.455][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.456][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-04 05:24:46.458][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:46.459][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.460][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.462][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-04 05:24:46.462][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-04 05:24:46.462][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-04 05:24:46.462][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-04 05:24:46.462][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-04 05:24:46.463][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:46.464][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:46.466][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:46.467][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:46.468][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:46.469][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:46.471][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.472][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.473][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:46.475][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:46.476][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.477][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.479][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-04 05:24:46.481][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.483][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-04 05:24:46.484][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.485][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:46.487][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.488][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.490][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.491][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.492][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-04 05:24:46.494][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:46.495][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.496][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-04 05:24:46.498][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:46.499][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.500][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.502][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-04 05:24:46.502][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-04 05:24:46.502][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-04 05:24:46.502][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-04 05:24:46.502][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-04 05:24:46.503][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:46.505][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:46.506][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:46.507][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:46.508][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:46.510][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:46.511][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.512][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.514][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:46.515][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:46.516][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.517][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.519][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-04 05:24:46.529][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.530][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-04 05:24:46.532][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.533][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:46.535][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.536][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.537][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.539][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.540][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-04 05:24:46.541][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:46.543][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.544][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-04 05:24:46.546][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:46.547][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.548][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.550][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.551][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:46.553][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:46.554][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:46.556][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:46.557][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:46.558][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:46.559][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.561][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.562][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:46.564][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:46.565][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.566][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.568][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-04 05:24:46.570][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.572][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-04 05:24:46.573][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.574][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:46.576][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.577][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.578][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.580][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.581][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-04 05:24:46.583][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:46.584][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.586][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-04 05:24:46.587][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:46.588][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.590][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:46.591][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.592][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-04 05:24:46.594][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:46.595][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:46.596][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:46.597][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:46.599][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:46.600][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:46.601][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.603][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:46.604][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:46.605][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:46.606][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:46.608][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-04 05:24:46.610][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.704][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[2024-05-04 05:24:46.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.710][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[2024-05-04 05:24:46.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.716][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[2024-05-04 05:24:46.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.722][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[2024-05-04 05:24:46.724][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-04 05:24:46.726][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-04 05:24:46.727][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-04 05:24:46.729][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-04 05:24:46.731][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-04 05:24:46.733][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-04 05:24:46.735][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-04 05:24:46.737][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-04 05:24:46.739][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-04 05:24:46.741][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-04 05:24:46.743][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-04 05:24:46.745][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-04 05:24:46.746][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-04 05:24:46.748][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-04 05:24:46.750][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-04 05:24:46.752][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-04 05:24:46.754][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-04 05:24:46.756][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-04 05:24:46.758][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-04 05:24:46.760][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-04 05:24:46.762][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-04 05:24:46.764][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-04 05:24:46.765][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-04 05:24:46.767][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-04 05:24:46.769][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-04 05:24:46.771][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-04 05:24:46.773][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-04 05:24:46.775][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-04 05:24:46.777][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-04 05:24:46.779][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-04 05:24:46.781][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-04 05:24:46.783][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-04 05:24:46.785][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-04 05:24:46.787][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-04 05:24:46.789][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-04 05:24:46.791][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-04 05:24:46.793][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-04 05:24:46.795][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-04 05:24:46.797][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-04 05:24:46.799][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-04 05:24:46.801][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-04 05:24:46.803][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-04 05:24:46.813][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-04 05:24:46.816][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-04 05:24:46.818][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-04 05:24:46.820][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-04 05:24:46.822][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-04 05:24:46.824][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-04 05:24:46.826][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-04 05:24:46.828][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-04 05:24:46.831][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-04 05:24:46.833][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-04 05:24:46.835][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-04 05:24:46.837][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-04 05:24:46.839][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-04 05:24:46.841][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-04 05:24:46.843][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-04 05:24:46.845][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-04 05:24:46.847][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-04 05:24:46.849][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-04 05:24:46.851][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-04 05:24:46.853][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-04 05:24:46.854][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-04 05:24:46.856][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-04 05:24:46.858][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-04 05:24:46.860][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-04 05:24:46.862][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-04 05:24:46.864][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-04 05:24:46.866][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-04 05:24:46.868][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-04 05:24:46.870][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-04 05:24:46.872][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-04 05:24:46.874][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-04 05:24:46.876][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-04 05:24:46.878][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-04 05:24:46.880][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-04 05:24:46.882][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-04 05:24:46.884][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-04 05:24:46.886][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-04 05:24:46.888][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-04 05:24:46.890][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-04 05:24:46.892][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-04 05:24:46.894][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-04 05:24:46.896][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-04 05:24:46.898][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-04 05:24:46.899][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-04 05:24:46.900][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.903][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.981][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.DEBUG[2024-05-04 05:24:46.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:46.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:46.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:46.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:46.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:46.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:46.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:46.998][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[2024-05-04 05:24:46.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:47.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:47.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:47.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:47.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:47.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:47.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:47.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:47.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:47.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:47.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:47.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:47.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:47.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:47.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:47.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:47.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:47.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:47.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:47.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:47.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:47.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:47.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:47.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:47.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:47.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:47.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:47.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:47.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:47.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:47.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:47.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:47.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:47.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:47.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:47.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:47.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:47.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:47.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:47.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:47.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:47.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:47.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-04 05:24:47.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:47.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:47.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:47.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:47.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:47.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:47.062][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-04 05:24:47.064][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:47.066][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:47.068][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-04 05:24:47.069][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:47.071][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-04 05:24:47.072][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:47.074][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-04 05:24:47.075][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:47.076][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-04 05:24:47.078][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-04 05:24:47.079][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-04 05:24:47.081][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:47.082][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-04 05:24:47.084][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-04 05:24:47.085][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-04 05:24:47.087][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-04 05:24:47.088][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-04 05:24:47.088][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-04 05:24:47.088][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-04 05:24:47.090][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-04 05:24:47.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:47.100][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:47.102][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-04 05:24:47.103][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-04 05:24:47.104][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-04 05:24:47.106][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-04 05:24:47.107][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-04 05:24:47.107][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-04 05:24:47.108][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:47.110][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:47.111][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-04 05:24:47.112][self$setPropertyValue]
biodb.DEBUG[2024-05-04 05:24:47.114][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-04 05:24:47.116][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-04 05:24:47.118][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-04 05:24:47.120][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-04 05:24:47.122][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-04 05:24:47.127][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:47.128][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-04 05:24:47.130][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:47.132][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-04 05:24:47.133][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:47.135][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:47.136][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-04 05:24:47.138][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-04 05:24:47.139][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-04 05:24:47.139][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-04 05:24:47.141][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-04 05:24:47.142][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-04 05:24:47.143][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-04 05:24:47.144][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-04 05:24:47.146][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-04 05:24:47.148][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-04 05:24:47.149][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:47.151][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:47.153][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-04 05:24:47.154][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-04 05:24:47.156][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-04 05:24:47.157][biodb::testThat]
biodb.INFO [2024-05-04 05:24:47.159][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2024-05-04 05:24:47.160][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-04 05:24:47.161][biodb::testThat]
biodb.DEBUG[2024-05-04 05:24:47.164][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-04 05:24:47.165][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-05-04 05:24:47.167][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-05-04 05:24:47.170][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:47.172][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:47.174][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-04 05:24:47.176][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:47.177][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-04 05:24:47.179][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-04 05:24:47.181][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-04 05:24:47.182][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-04 05:24:47.183][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-04 05:24:47.185][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-04 05:24:47.186][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-05-04 05:24:47.188][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-05-04 05:24:47.190][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-04 05:24:47.192][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:47.194][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-04 05:24:47.197][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-05-04 05:24:47.198][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-04 05:24:47.201][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-05-04 05:24:47.202][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-04 05:24:47.204][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-04 05:24:47.205][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-04 05:24:47.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:47.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:47.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:47.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:47.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:47.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:47.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-04 05:24:47.225][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.227][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.229][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.237][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:47.238][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:47.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.249][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.251][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:47.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:47.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.257][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:47.258][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:47.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.261][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.263][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:47.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:47.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.269][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:47.270][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:47.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.273][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.275][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:47.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:47.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.280][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:47.282][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:47.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.284][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:47.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:47.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.292][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:47.293][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:47.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.296][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:47.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:47.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.304][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:47.305][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:47.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.308][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.310][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:47.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:47.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.316][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:47.318][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:47.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.321][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.323][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:47.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:47.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.329][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:47.331][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:47.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.333][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.336][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:47.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:47.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.342][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:47.343][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:47.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.346][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.348][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:47.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:47.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.354][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:47.356][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:47.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.359][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.361][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:47.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:47.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.367][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:47.368][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:47.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.371][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:47.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:47.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.379][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.381][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.384][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.392][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:47.393][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:47.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.404][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:47.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:47.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.412][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:47.414][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:47.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.417][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:47.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:47.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.425][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:47.427][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:47.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.430][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.432][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:47.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:47.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.438][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:47.440][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:47.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.442][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.444][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:47.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:47.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.451][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-04 05:24:47.452][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:47.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.455][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.457][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-04 05:24:47.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:47.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.481][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:47.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:47.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.487][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:47.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:47.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.493][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:47.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:47.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.498][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:47.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:47.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.505][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:47.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:47.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.510][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:47.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:47.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:47.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:47.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:47.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:47.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:47.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:47.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:47.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:47.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:47.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:47.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:47.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:47.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.565][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:47.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:47.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.571][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:47.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:47.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.576][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:47.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.582][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:47.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:47.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.587][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:47.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:47.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.593][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:47.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:47.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.598][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:47.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:47.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.604][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:47.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:47.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.609][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:47.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:47.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.614][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:47.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:47.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.620][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:47.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:47.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.626][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:47.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:47.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.632][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:47.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:47.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.638][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:47.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:47.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.644][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:47.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:47.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:47.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:47.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:47.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:47.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:47.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:47.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.683][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:47.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:47.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.688][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:47.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:47.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.694][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:47.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:47.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:47.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:47.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:47.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:47.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:47.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:47.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:47.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:47.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.729][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:47.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:47.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:47.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:47.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.740][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:47.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:47.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.745][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:47.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:47.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.750][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:47.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:47.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.756][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:47.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:47.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.761][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:47.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:47.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.766][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:47.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:47.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.772][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:47.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:47.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.777][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:47.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:47.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.782][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:47.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:47.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.788][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-04 05:24:47.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.809][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-04 05:24:47.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:47.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:47.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:47.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:47.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:47.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.827][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:47.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:47.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:47.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:47.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.837][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:47.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:47.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.843][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:47.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:47.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.849][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:47.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:47.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.868][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:47.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:47.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:47.908][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-04 05:24:47.910][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:47.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:47.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.916][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:47.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:47.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.922][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:47.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:47.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.928][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:47.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:47.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:47.933][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-04 05:24:47.935][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-04 05:24:47.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:47.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:47.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:47.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:47.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:47.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:47.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:47.950][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-05-04 05:24:47.951][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-04 05:24:47.954][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:47.956][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-04 05:24:47.959][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-05-04 05:24:47.960][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-04 05:24:47.963][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-05-04 05:24:47.964][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-04 05:24:47.966][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-04 05:24:47.967][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-04 05:24:47.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:47.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:47.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:47.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:47.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:47.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:47.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-04 05:24:47.987][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.988][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.991][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:47.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:47.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:47.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:47.999][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:48.000][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:48.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.003][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.005][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:48.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:48.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.020][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:48.022][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:48.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.025][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.027][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:48.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:48.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.033][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:48.034][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:48.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.037][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.039][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:48.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:48.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:48.047][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:48.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.050][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:48.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:48.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.057][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:48.059][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:48.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.061][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:48.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:48.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.069][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:48.071][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:48.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.074][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.076][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:48.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:48.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.082][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:48.084][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:48.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.086][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.088][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:48.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:48.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.094][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:48.096][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:48.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.099][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.101][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:48.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:48.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.106][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:48.108][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:48.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.111][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.113][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:48.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:48.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.118][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:48.120][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:48.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.123][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.124][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:48.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:48.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.130][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:48.132][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:48.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.134][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:48.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:48.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.142][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.144][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.147][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.156][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:48.158][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:48.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.161][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:48.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:48.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.169][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:48.180][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:48.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.183][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.185][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:48.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:48.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.192][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.194][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.196][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.198][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.204][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:48.206][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:48.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.209][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.211][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:48.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:48.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.217][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-04 05:24:48.219][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:48.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.222][ef$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.224][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-04 05:24:48.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:48.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:48.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:48.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:48.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:48.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:48.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:48.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.249][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:48.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:48.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.255][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:48.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:48.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.261][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-04 05:24:48.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-04 05:24:48.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.267][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:48.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:48.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.274][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:48.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:48.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.280][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-04 05:24:48.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-04 05:24:48.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:48.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:48.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:48.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:48.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-04 05:24:48.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-04 05:24:48.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:48.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:48.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:48.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:48.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:48.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-04 05:24:48.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.323][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:48.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:48.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.329][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:48.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:48.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.335][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:48.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-04 05:24:48.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.349][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:48.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:48.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.355][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:48.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:48.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.361][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:48.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-04 05:24:48.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.366][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:48.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:48.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.372][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:48.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:48.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.377][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:48.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-04 05:24:48.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.383][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.389][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.394][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.399][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:48.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:48.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.405][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:48.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:48.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.410][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-04 05:24:48.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-04 05:24:48.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:48.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:48.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:48.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:48.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-04 05:24:48.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-04 05:24:48.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.450][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:48.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:48.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.456][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:48.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:48.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.462][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:48.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-04 05:24:48.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:48.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:48.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:48.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:48.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:48.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-04 05:24:48.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:48.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:48.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.497][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:48.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:48.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.504][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:48.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:48.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.509][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:48.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:48.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.515][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:48.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:48.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.521][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:48.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-04 05:24:48.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.527][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:48.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:48.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.533][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:48.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:48.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.538][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:48.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-04 05:24:48.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.544][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:48.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:48.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.550][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:48.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:48.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.556][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-04 05:24:48.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-04 05:24:48.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.562][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-04 05:24:48.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.573][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.585][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-04 05:24:48.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-04 05:24:48.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.592][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:48.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:48.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.598][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:48.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:48.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.603][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:48.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:48.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:48.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:48.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-04 05:24:48.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-04 05:24:48.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.621][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:48.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:48.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.626][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:48.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:48.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:48.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:48.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.638][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:48.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-04 05:24:48.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:48.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:48.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:48.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:48.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:48.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:48.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:48.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:48.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:48.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:48.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-04 05:24:48.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-04 05:24:48.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:48.692][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-05-04 05:24:48.694][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.700][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.705][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.712][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:48.717][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-04 05:24:48.719][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-05-04 05:24:48.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:48.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:48.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:48.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:48.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:48.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:48.735][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[2024-05-04 05:24:48.742][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-04 05:24:48.744][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-05-04 05:24:48.745][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-05-04 05:24:48.748][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:48.750][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:48.752][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-04 05:24:48.754][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:48.755][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-04 05:24:48.757][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-04 05:24:48.759][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-04 05:24:48.760][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-04 05:24:48.762][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-04 05:24:48.763][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-04 05:24:48.765][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-04 05:24:48.767][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.773][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.779][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.785][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.791][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.797][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.803][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:48.817][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-04 05:24:48.819][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-04 05:24:48.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:48.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:48.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:48.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:48.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:48.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:48.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-04 05:24:48.837][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.843][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.849][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.856][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.862][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.868][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.874][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:48.880][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-05-04 05:24:48.881][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-04 05:24:48.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:48.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:48.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:48.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:48.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:48.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:48.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-04 05:24:48.904][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-04 05:24:48.905][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-05-04 05:24:48.907][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-05-04 05:24:48.909][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:48.911][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:48.914][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-04 05:24:48.916][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-04 05:24:48.917][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-04 05:24:48.919][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-04 05:24:48.921][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-04 05:24:48.923][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-04 05:24:48.924][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-04 05:24:48.926][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-04 05:24:48.928][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-04 05:24:48.930][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.936][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.942][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.947][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.954][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.959][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:48.965][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:48.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:48.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:48.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:48.979][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-05-04 05:24:48.981][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-05-04 05:24:48.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:48.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:48.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:48.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:48.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:48.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:48.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-04 05:24:48.998][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:49.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:49.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:49.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:49.004][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:49.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:49.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:49.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:49.010][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:49.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:49.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:49.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:49.016][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:49.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:49.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:49.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:49.023][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:49.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:49.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:49.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:49.029][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:49.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:49.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:49.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-04 05:24:49.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-04 05:24:49.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-04 05:24:49.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-04 05:24:49.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-04 05:24:49.041][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-04 05:24:49.042][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-04 05:24:49.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-04 05:24:49.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:49.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:49.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:49.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:49.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:49.057][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.INFO [2024-05-04 05:24:49.067][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-04 05:24:49.069][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-04 05:24:49.070][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-04 05:24:49.072][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-04 05:24:49.073][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-04 05:24:49.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-04 05:24:49.076][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-04 05:24:49.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-04 05:24:49.079][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-04 05:24:49.080][FUN] Functions in observer 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 
 12.308   0.471  35.602 

Example timings