Pierrick Roger
| Snapshot Date: 2024-05-21 14:00:15 -0400 (Tue, 21 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) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-05-22 11:34:39 -0400 (Wed, 22 May 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4751 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4485 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 3444 |
| 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 202/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.10.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | see weekly results here | ||||||||||||
|
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. |
| Package: biodbHmdb |
| Version: 1.10.0 |
| Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings biodbHmdb_1.10.0.tar.gz |
| StartedAt: 2024-05-21 20:38:35 -0400 (Tue, 21 May 2024) |
| EndedAt: 2024-05-21 20:39:38 -0400 (Tue, 21 May 2024) |
| EllapsedTime: 62.7 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings biodbHmdb_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.10.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... WARNING
Found the following significant warnings:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
See ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 2 WARNINGs, 2 NOTEs
See
‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor ‘EntryMaker::EntryMaker()’:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
23 | TagDetector accession_tag;
| ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
22 | bool closed;
| ^~~~~~
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
5 | EntryMaker::EntryMaker() :
| ^~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.19-bioc/R/lib -L/usr/local/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -L/home/biocbuild/bbs-3.19-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.19-bioc/R/site-library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package ‘biodbHmdb’
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)
biodbHmdb.Rcheck/tests/testthat.Rout
R version 4.4.0 (2024-04-24) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-05-21 20:39:08.922][biodb::testContext]
biodb.INFO [2024-05-21 20:39:08.925][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 20:39:08.926][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-05-21 20:39:08.927][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 20:39:08.928][biodb::testContext]
biodb.INFO [2024-05-21 20:39:08.929][biodb::testThat]
biodb.INFO [2024-05-21 20:39:08.930][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-05-21 20:39:08.931][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:08.932][biodb::testThat]
biodb.INFO [2024-05-21 20:39:09.022][biodb::testContext]
biodb.INFO [2024-05-21 20:39:09.023][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 20:39:09.024][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-05-21 20:39:09.025][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 20:39:09.026][biodb::testContext]
biodb.INFO [2024-05-21 20:39:09.034][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-21 20:39:09.036][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-05-21 20:39:09.060][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 20:39:09.063][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-21 20:39:09.064][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-21 20:39:09.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.068][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-21 20:39:09.090][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-21 20:39:09.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.094][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[2024-05-21 20:39:09.095][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-21 20:39:09.096][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-21 20:39:09.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.101][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-21 20:39:09.102][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-21 20:39:09.103][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-21 20:39:09.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.107][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-21 20:39:09.108][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-21 20:39:09.109][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-21 20:39:09.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.113][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-21 20:39:09.114][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-21 20:39:09.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.118][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-21 20:39:09.119][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-21 20:39:09.120][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-21 20:39:09.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.124][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-21 20:39:09.125][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-21 20:39:09.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.129][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-21 20:39:09.130][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-21 20:39:09.131][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-21 20:39:09.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.135][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-21 20:39:09.136][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-21 20:39:09.137][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-21 20:39:09.138][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-21 20:39:09.139][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-21 20:39:09.140][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-21 20:39:09.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.144][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-21 20:39:09.145][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-21 20:39:09.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.149][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-21 20:39:09.150][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-21 20:39:09.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.154][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-21 20:39:09.155][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-21 20:39:09.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.159][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-21 20:39:09.160][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-21 20:39:09.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.164][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-21 20:39:09.165][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-21 20:39:09.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.169][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-21 20:39:09.170][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-21 20:39:09.174][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-21 20:39:09.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.179][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-21 20:39:09.181][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-21 20:39:09.183][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-21 20:39:09.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.193][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-21 20:39:09.253][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.280][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-21 20:39:09.282][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.283][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:09.285][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.286][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.288][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.289][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.302][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 20:39:09.303][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:09.304][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.305][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-21 20:39:09.306][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:09.307][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.308][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.309][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 20:39:09.309][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 20:39:09.309][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 20:39:09.309][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 20:39:09.309][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 20:39:09.310][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:09.311][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:09.311][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:09.312][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:09.313][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:09.314][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:09.315][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.316][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.317][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:09.318][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:09.318][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.319][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.321][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-21 20:39:09.322][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.323][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 20:39:09.324][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.325][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:09.326][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.327][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.328][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.329][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.330][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 20:39:09.331][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:09.332][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.333][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-21 20:39:09.334][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:09.335][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.336][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.337][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 20:39:09.337][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 20:39:09.337][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 20:39:09.337][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 20:39:09.337][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 20:39:09.338][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:09.339][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:09.339][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:09.340][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:09.341][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:09.342][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:09.343][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.344][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.345][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:09.346][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:09.346][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.347][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.348][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-21 20:39:09.350][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.351][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-21 20:39:09.352][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.353][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:09.354][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.355][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.356][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.357][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.358][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 20:39:09.359][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:09.359][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.360][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-21 20:39:09.361][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:09.362][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.363][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.364][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.365][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:09.366][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:09.367][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:09.368][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:09.369][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:09.370][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:09.370][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.371][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.372][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:09.373][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:09.374][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.375][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.376][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-21 20:39:09.378][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.379][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 20:39:09.380][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.381][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:09.382][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.383][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.384][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.384][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.385][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 20:39:09.386][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:09.387][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.388][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-21 20:39:09.389][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:09.390][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.391][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.392][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.393][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:09.394][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:09.395][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:09.396][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:09.397][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:09.398][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:09.399][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.399][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.400][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:09.401][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:09.402][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.403][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.407][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 20:39:09.408][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.418][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[2024-05-21 20:39:09.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.489][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-21 20:39:09.494][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-21 20:39:09.495][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-21 20:39:09.497][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-21 20:39:09.498][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 20:39:09.499][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-21 20:39:09.500][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-21 20:39:09.502][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-21 20:39:09.503][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-21 20:39:09.504][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-21 20:39:09.506][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 20:39:09.507][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-21 20:39:09.508][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-21 20:39:09.510][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-21 20:39:09.511][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-21 20:39:09.512][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-21 20:39:09.514][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-21 20:39:09.515][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-21 20:39:09.516][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 20:39:09.517][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-21 20:39:09.519][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-21 20:39:09.520][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-21 20:39:09.521][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-21 20:39:09.523][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-21 20:39:09.524][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-21 20:39:09.525][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-21 20:39:09.527][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-21 20:39:09.528][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-21 20:39:09.529][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-21 20:39:09.530][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-21 20:39:09.532][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-21 20:39:09.533][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-21 20:39:09.534][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-21 20:39:09.536][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-21 20:39:09.537][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-21 20:39:09.538][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-21 20:39:09.540][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-21 20:39:09.541][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-21 20:39:09.542][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-21 20:39:09.544][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-21 20:39:09.545][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-21 20:39:09.546][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-21 20:39:09.548][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-21 20:39:09.549][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-21 20:39:09.550][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-21 20:39:09.552][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-21 20:39:09.553][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-21 20:39:09.554][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-21 20:39:09.556][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-21 20:39:09.557][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-21 20:39:09.558][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-21 20:39:09.559][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-21 20:39:09.561][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-21 20:39:09.562][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-21 20:39:09.563][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-21 20:39:09.565][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-21 20:39:09.566][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-21 20:39:09.567][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-21 20:39:09.569][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-21 20:39:09.570][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-21 20:39:09.571][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-21 20:39:09.573][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-21 20:39:09.574][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-21 20:39:09.575][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-21 20:39:09.577][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-21 20:39:09.578][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-21 20:39:09.579][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 20:39:09.581][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 20:39:09.582][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-21 20:39:09.583][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-21 20:39:09.584][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-21 20:39:09.586][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-21 20:39:09.587][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-21 20:39:09.588][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-21 20:39:09.590][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-21 20:39:09.591][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-21 20:39:09.592][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-21 20:39:09.594][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-21 20:39:09.595][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-21 20:39:09.596][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-21 20:39:09.598][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-21 20:39:09.599][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-21 20:39:09.600][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-21 20:39:09.606][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-21 20:39:09.607][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-21 20:39:09.611][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 20:39:09.612][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.613][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.636][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[2024-05-21 20:39:09.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.648][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[2024-05-21 20:39:09.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.654][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[2024-05-21 20:39:09.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.696][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[2024-05-21 20:39:09.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:09.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:09.727][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-21 20:39:09.737][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:09.739][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.740][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.741][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.742][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:09.743][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.744][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-21 20:39:09.745][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.746][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.747][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-21 20:39:09.748][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:09.749][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.750][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-21 20:39:09.751][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-21 20:39:09.752][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-21 20:39:09.753][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:09.754][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 20:39:09.754][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-21 20:39:09.754][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-21 20:39:09.755][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-21 20:39:09.756][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:09.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:09.757][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:09.758][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:09.759][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:09.760][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:09.761][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-21 20:39:09.761][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-21 20:39:09.762][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:09.763][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:09.764][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:09.765][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:09.771][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-21 20:39:09.773][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-21 20:39:09.774][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-21 20:39:09.776][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 20:39:09.777][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-21 20:39:09.802][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:09.803][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-21 20:39:09.808][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:09.812][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-21 20:39:09.817][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:09.818][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:09.863][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-21 20:39:09.864][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-21 20:39:09.865][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-21 20:39:09.865][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-21 20:39:09.866][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:09.867][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:09.868][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-21 20:39:09.869][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-21 20:39:09.870][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:09.887][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-21 20:39:09.889][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:09.890][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:09.891][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-21 20:39:09.893][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:09.893][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-21 20:39:09.902][biodb::testThat]
biodb.INFO [2024-05-21 20:39:09.903][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-05-21 20:39:09.904][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:09.905][biodb::testThat]
biodb.TRACE[2024-05-21 20:39:09.909][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-05-21 20:39:09.911][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-21 20:39:09.914][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-21 20:39:09.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:09.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:09.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:09.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:09.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:09.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:09.932][FUN] Functions in observer BiodbConfig: [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[2024-05-21 20:39:09.944][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:09.946][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:09.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:09.947][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:09.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:09.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:09.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:09.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:09.965][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:09.966][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:09.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:09.968][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:09.994][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:09.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:09.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:09.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:09.998][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:09.999][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.001][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.003][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.006][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:10.007][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:10.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.009][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.011][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:10.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:10.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.015][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.017][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.030][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.031][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.033][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.038][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.039][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.041][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.043][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.047][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.048][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.050][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.051][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.055][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.056][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.058][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.059][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.063][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.064][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.066][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.068][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.072][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:10.073][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:10.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.075][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.076][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:10.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:10.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.080][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:10.081][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:10.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.082][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:10.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:10.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.088][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.089][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.091][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.096][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.097][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.099][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.104][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.107][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.112][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:10.114][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:10.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.115][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.117][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:10.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:10.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.121][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:10.122][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:10.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.124][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.125][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:10.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:10.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.129][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-21 20:39:10.130][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.132][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.134][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-21 20:39:10.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.186][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.190][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.194][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.198][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:10.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:10.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.202][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:10.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:10.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.206][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:10.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:10.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.233][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.241][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.245][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.249][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.253][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.257][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.261][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.265][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.269][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:10.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:10.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.272][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:10.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:10.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.276][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:10.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:10.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:10.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:10.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.284][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:10.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:10.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:10.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:10.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:10.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:10.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:10.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:10.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:10.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:10.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.319][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.323][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.327][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.343][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.351][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.354][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.358][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.363][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.367][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.370][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.374][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.378][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:10.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:10.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.382][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:10.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:10.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.386][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:10.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:10.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.390][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-21 20:39:10.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.406][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-21 20:39:10.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:10.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.426][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.431][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.452][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.455][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.463][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:10.490][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-21 20:39:10.493][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 20:39:10.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 20:39:10.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.497][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 20:39:10.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 20:39:10.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.500][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-21 20:39:10.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-21 20:39:10.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.504][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-21 20:39:10.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-21 20:39:10.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.531][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.562][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.566][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.570][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:10.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.598][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.599][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.601][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:10.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:10.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.613][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.617][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.621][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.624][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.625][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.627][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.628][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:10.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.651][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.652][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.653][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:10.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.666][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.670][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.674][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.678][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.679][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.680][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.681][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:10.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.704][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.705][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.707][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:10.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.719][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.723][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.727][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.735][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.736][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.738][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.739][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:10.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.758][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.761][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.762][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.764][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:10.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:10.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.776][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:10.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:10.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.780][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:10.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:10.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.784][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:10.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:10.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.788][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:10.789][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:10.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.791][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.792][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:10.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:10.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.803][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:10.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:10.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:10.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:10.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.811][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:10.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:10.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.815][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:10.816][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:10.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.818][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.819][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:10.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:10.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.831][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.835][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.839][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.843][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.844][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.846][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.847][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:10.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.869][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.870][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.877][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:10.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.888][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.892][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.896][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.900][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.901][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.903][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.904][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:10.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.915][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.919][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.923][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.927][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.928][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.930][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.931][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:10.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.941][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.945][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.949][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.953][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.954][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.956][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.957][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:10.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.968][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:10.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:10.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.972][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:10.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:10.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.976][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:10.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:10.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.980][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:10.981][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:10.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.982][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.983][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:10.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:10.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:10.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:10.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:10.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:10.998][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:10.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:11.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:11.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:11.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.006][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:11.007][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:11.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.009][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:11.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:11.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.038][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.039][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.041][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.054][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.058][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.063][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.066][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.067][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.069][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.070][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.081][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.082][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.084][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.088][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.090][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.091][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.096][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.097][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.099][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.103][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.104][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.106][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.110][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.111][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.113][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.117][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.118][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.120][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.124][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.125][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.127][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.131][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:11.132][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:11.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.134][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.138][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.139][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.141][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.145][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:11.146][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:11.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.148][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.152][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:11.153][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:11.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.160][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.165][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.166][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.168][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.172][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.173][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.175][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.179][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.180][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.182][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.186][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.187][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.189][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.194][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.195][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.197][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.201][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.202][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.204][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.208][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:11.209][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:11.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.211][ef$get] fields variable is a list.
biodb.INFO [2024-05-21 20:39:11.218][biodb::testThat]
biodb.INFO [2024-05-21 20:39:11.219][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-05-21 20:39:11.220][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:11.221][biodb::testThat]
biodb.DEBUG[2024-05-21 20:39:11.235][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-05-21 20:39:11.243][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-21 20:39:11.248][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:11.250][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-21 20:39:11.252][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-05-21 20:39:11.253][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 20:39:11.255][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-05-21 20:39:11.256][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 20:39:11.280][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-21 20:39:11.281][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-21 20:39:11.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:11.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:11.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:11.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:11.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:11.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:11.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 20:39:11.296][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.303][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.306][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.311][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.312][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.313][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.315][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.319][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.320][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.321][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.323][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.327][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.328][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.329][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.331][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.336][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.337][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.338][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.343][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.344][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.347][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.352][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.353][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.355][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.357][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.361][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.362][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.364][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.365][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.369][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.370][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.372][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.374][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.377][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.378][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.380][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.382][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.385][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:11.386][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:11.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.388][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.389][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:11.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:11.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.393][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:11.394][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:11.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.396][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:11.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:11.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.402][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.403][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.404][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.410][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.411][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.413][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.418][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.419][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.421][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.422][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.426][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.427][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.429][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.430][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.434][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:11.435][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:11.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.437][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.438][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:11.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:11.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.448][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-21 20:39:11.449][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:11.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.451][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.452][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-21 20:39:11.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:11.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.467][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.471][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.475][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:11.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.479][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.483][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.487][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:11.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:11.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:11.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.514][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.518][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.522][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:11.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.525][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.529][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.533][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:11.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.537][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:11.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:11.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.541][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:11.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:11.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.545][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:11.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:11.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.548][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.552][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.556][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:11.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:11.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.564][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:11.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:11.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.568][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:11.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:11.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:11.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:11.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:11.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:11.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:11.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:11.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.598][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.602][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.606][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:11.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:11.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.621][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.629][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.632][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.636][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.640][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:11.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.644][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.648][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.652][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:11.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.655][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:11.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:11.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.659][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:11.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:11.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.663][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:11.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:11.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.667][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-21 20:39:11.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.671][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.682][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-21 20:39:11.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:11.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.695][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.703][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.712][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:11.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:11.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.716][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:11.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:11.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.724][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:11.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:11.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:11.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:11.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:11.750][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-21 20:39:11.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-05-21 20:39:11.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-05-21 20:39:11.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-05-21 20:39:11.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-05-21 20:39:11.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-05-21 20:39:11.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-05-21 20:39:11.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-21 20:39:11.769][biodb::testThat]
biodb.INFO [2024-05-21 20:39:11.770][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-05-21 20:39:11.771][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:11.772][biodb::testThat]
biodb.TRACE[2024-05-21 20:39:11.776][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.777][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.778][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:11.780][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-05-21 20:39:11.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:11.819][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-05-21 20:39:11.820][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-05-21 20:39:11.821][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-21 20:39:11.822][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-21 20:39:11.823][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:11.825][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:11.826][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-21 20:39:11.827][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:11.828][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-21 20:39:11.830][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-21 20:39:11.831][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-21 20:39:11.832][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-21 20:39:11.833][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-21 20:39:11.834][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-21 20:39:11.835][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-21 20:39:11.836][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.840][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.852][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:11.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:11.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:11.856][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-21 20:39:11.857][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-21 20:39:11.857][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-05-21 20:39:11.868][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.869][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.871][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:11.872][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-05-21 20:39:11.882][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.886][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.890][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:11.896][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[2024-05-21 20:39:11.947][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-21 20:39:11.948][private$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[2024-05-21 20:39:11.949][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-05-21 20:39:11.967][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:11.969][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:11.970][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-21 20:39:11.972][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:11.973][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-21 20:39:11.988][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-21 20:39:11.989][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-21 20:39:11.990][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-21 20:39:11.991][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-21 20:39:11.992][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-21 20:39:11.993][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-21 20:39:11.995][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:11.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:11.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:11.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:11.999][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:12.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:12.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.003][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:12.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:12.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.007][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:12.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:12.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:12.011][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-21 20:39:12.012][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-21 20:39:12.013][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-05-21 20:39:12.023][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.024][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.026][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:12.028][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-05-21 20:39:12.039][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.044][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.048][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:12.055][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-05-21 20:39:12.056][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-05-21 20:39:12.057][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-05-21 20:39:12.058][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-05-21 20:39:12.060][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:12.062][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:12.063][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-21 20:39:12.064][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:12.065][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-21 20:39:12.066][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-21 20:39:12.067][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-21 20:39:12.068][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-21 20:39:12.069][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-21 20:39:12.070][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-21 20:39:12.071][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-21 20:39:12.073][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.077][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.081][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.086][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:12.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:12.090][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-21 20:39:12.097][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-21 20:39:12.098][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-05-21 20:39:12.112][biodb::testThat]
biodb.INFO [2024-05-21 20:39:12.113][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-05-21 20:39:12.114][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:12.115][biodb::testThat]
biodb.TRACE[2024-05-21 20:39:12.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:12.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:12.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.129][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:12.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:12.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:12.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:12.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:12.147][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-05-21 20:39:12.149][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-21 20:39:12.150][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-21 20:39:12.151][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:12.153][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:12.154][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-21 20:39:12.155][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:12.156][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-21 20:39:12.157][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-21 20:39:12.158][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-21 20:39:12.159][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-21 20:39:12.160][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-21 20:39:12.161][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-21 20:39:12.162][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-21 20:39:12.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:12.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:12.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.168][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:12.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:12.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.172][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:12.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:12.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.176][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:12.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:12.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:12.180][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-21 20:39:12.181][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-05-21 20:39:12.195][biodb::testThat]
biodb.INFO [2024-05-21 20:39:12.196][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-05-21 20:39:12.197][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:12.198][biodb::testThat]
biodb.TRACE[2024-05-21 20:39:12.218][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 20:39:12.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 20:39:12.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.222][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 20:39:12.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 20:39:12.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.226][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-21 20:39:12.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-21 20:39:12.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.231][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-21 20:39:12.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-21 20:39:12.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.282][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 20:39:12.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 20:39:12.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.286][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 20:39:12.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 20:39:12.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.290][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-21 20:39:12.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-21 20:39:12.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:12.293][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-21 20:39:12.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-21 20:39:12.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:12.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-21 20:39:12.302][biodb::testThat]
biodb.INFO [2024-05-21 20:39:12.303][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-05-21 20:39:12.304][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:12.305][biodb::testThat]
biodb.INFO [2024-05-21 20:39:12.313][biodb::testThat]
biodb.INFO [2024-05-21 20:39:12.314][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-05-21 20:39:12.315][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:12.316][biodb::testThat]
biodb.INFO [2024-05-21 20:39:12.323][biodb::testThat]
biodb.INFO [2024-05-21 20:39:12.324][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-05-21 20:39:12.325][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:12.326][biodb::testThat]
biodb.DEBUG[2024-05-21 20:39:12.331][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-05-21 20:39:27.189][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-05-21 20:39:27.244][biodb::testThat]
biodb.INFO [2024-05-21 20:39:27.246][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-05-21 20:39:27.247][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:27.248][biodb::testThat]
biodb.DEBUG[2024-05-21 20:39:27.736][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-05-21 20:39:27.798][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:27.801][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:27.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:27.806][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:27.809][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:27.811][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:27.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:27.816][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:27.819][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:27.821][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:27.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:27.826][ef$get] fields variable is a list.
biodb.INFO [2024-05-21 20:39:27.829][biodb::testThat]
biodb.INFO [2024-05-21 20:39:27.831][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-05-21 20:39:27.833][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:27.863][biodb::testThat]
biodb.DEBUG[2024-05-21 20:39:27.865][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-05-21 20:39:27.915][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2024-05-21 20:39:27.917][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2024-05-21 20:39:27.918][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-05-21 20:39:27.920][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-05-21 20:39:27.921][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-05-21 20:39:27.922][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-05-21 20:39:27.924][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-05-21 20:39:27.926][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-05-21 20:39:27.927][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-05-21 20:39:27.928][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-05-21 20:39:27.930][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/markerb0cec18c0097cmarker".
biodb.TRACE[2024-05-21 20:39:27.931][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-05-21 20:39:27.932][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-05-21 20:39:27.934][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-05-21 20:39:27.935][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-05-21 20:39:27.936][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2024-05-21 20:39:27.937][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-05-21 20:39:27.938][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2024-05-21 20:39:27.946][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-05-21 20:39:27.947][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-05-21 20:39:27.947][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-05-21 20:39:27.949][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2024-05-21 20:39:27.957][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-05-21 20:39:27.958][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-05-21 20:39:27.959][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-05-21 20:39:27.960][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-05-21 20:39:27.962][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/markerb0cec55165187marker".
biodb.TRACE[2024-05-21 20:39:27.963][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-05-21 20:39:27.964][self$addFilesToCache] Done adding files.
biodb.TRACE[2024-05-21 20:39:27.984][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-05-21 20:39:27.986][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 20:39:27.987][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 20:39:27.988][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 20:39:27.989][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:27.990][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-21 20:39:27.991][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-21 20:39:27.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:27.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:27.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:27.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.002][FUN] Functions in observer BiodbConfig: [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[2024-05-21 20:39:28.004][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:28.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:28.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.007][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:28.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:28.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:28.034][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-05-21 20:39:28.035][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-05-21 20:39:28.052][biodb::testThat]
biodb.INFO [2024-05-21 20:39:28.053][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-05-21 20:39:28.054][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:28.055][biodb::testThat]
biodb.DEBUG[2024-05-21 20:39:28.063][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-05-21 20:39:28.064][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-05-21 20:39:28.065][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-21 20:39:28.067][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.068][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-21 20:39:28.070][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-05-21 20:39:28.071][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 20:39:28.072][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 20:39:28.073][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 20:39:28.074][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.104][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-21 20:39:28.106][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-21 20:39:28.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:28.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.117][FUN] Functions in observer BiodbConfig: [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[2024-05-21 20:39:28.119][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:28.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:28.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.123][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:28.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:28.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:28.150][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-05-21 20:39:28.151][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-05-21 20:39:28.152][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-05-21 20:39:28.164][biodb::testThat]
biodb.INFO [2024-05-21 20:39:28.166][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-05-21 20:39:28.167][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:28.167][biodb::testThat]
biodb.INFO [2024-05-21 20:39:28.189][biodb::testThat]
biodb.INFO [2024-05-21 20:39:28.190][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-05-21 20:39:28.191][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:28.192][biodb::testThat]
biodb.DEBUG[2024-05-21 20:39:28.195][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.197][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.198][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-21 20:39:28.200][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.201][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-21 20:39:28.202][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-21 20:39:28.203][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-21 20:39:28.204][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-21 20:39:28.205][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-05-21 20:39:28.228][biodb::testThat]
biodb.INFO [2024-05-21 20:39:28.253][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-05-21 20:39:28.255][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:28.257][biodb::testThat]
biodb.DEBUG[2024-05-21 20:39:28.260][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.262][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.263][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-21 20:39:28.265][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.266][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-21 20:39:28.267][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-21 20:39:28.268][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-21 20:39:28.269][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-21 20:39:28.270][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-05-21 20:39:28.279][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:28.280][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:28.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.282][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.283][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:28.284][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:28.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.286][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:28.287][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:28.288][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:28.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:28.290][ef$get] fields variable is a list.
biodb.INFO [2024-05-21 20:39:28.291][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-21 20:39:28.292][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-21 20:39:28.301][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-21 20:39:28.302][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-21 20:39:28.303][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.304][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.306][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-21 20:39:28.311][biodb::testContext]
biodb.INFO [2024-05-21 20:39:28.312][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 20:39:28.313][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-05-21 20:39:28.314][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 20:39:28.315][biodb::testContext]
biodb.INFO [2024-05-21 20:39:28.319][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-21 20:39:28.321][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-05-21 20:39:28.325][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 20:39:28.326][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-21 20:39:28.327][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-21 20:39:28.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.331][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-21 20:39:28.332][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-21 20:39:28.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.336][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-21 20:39:28.338][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-21 20:39:28.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.342][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-21 20:39:28.343][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-21 20:39:28.344][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-21 20:39:28.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.348][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-21 20:39:28.349][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-21 20:39:28.350][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-21 20:39:28.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.354][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-21 20:39:28.356][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-21 20:39:28.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.360][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-21 20:39:28.361][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-21 20:39:28.362][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-21 20:39:28.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.365][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-21 20:39:28.366][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-21 20:39:28.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.369][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[2024-05-21 20:39:28.375][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-21 20:39:28.376][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-21 20:39:28.377][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-21 20:39:28.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.381][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-21 20:39:28.382][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-21 20:39:28.383][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-21 20:39:28.383][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-21 20:39:28.384][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-21 20:39:28.385][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-21 20:39:28.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.389][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-21 20:39:28.390][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-21 20:39:28.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.393][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-21 20:39:28.394][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-21 20:39:28.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.398][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-21 20:39:28.399][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-21 20:39:28.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.402][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-21 20:39:28.403][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-21 20:39:28.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.407][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-21 20:39:28.408][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-21 20:39:28.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.411][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-21 20:39:28.412][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-21 20:39:28.416][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-21 20:39:28.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.420][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-21 20:39:28.421][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-21 20:39:28.422][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-21 20:39:28.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.425][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-21 20:39:28.427][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.443][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-21 20:39:28.444][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.445][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:28.446][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.447][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.448][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.449][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.450][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 20:39:28.451][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:28.452][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.453][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-21 20:39:28.453][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:28.454][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.455][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.456][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 20:39:28.456][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 20:39:28.456][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 20:39:28.456][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 20:39:28.456][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 20:39:28.457][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:28.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:28.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:28.460][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:28.461][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:28.462][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:28.463][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.464][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.465][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:28.465][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:28.466][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.467][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.468][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-21 20:39:28.470][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.471][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 20:39:28.472][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.477][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:28.478][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.480][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.481][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.482][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.482][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 20:39:28.483][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:28.484][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.485][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-21 20:39:28.486][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:28.487][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.488][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.489][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 20:39:28.489][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 20:39:28.489][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 20:39:28.489][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 20:39:28.489][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 20:39:28.490][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:28.491][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:28.492][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:28.493][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:28.494][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:28.494][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:28.495][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.496][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.497][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:28.498][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:28.499][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.500][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.501][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-21 20:39:28.503][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.504][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-21 20:39:28.505][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.505][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:28.506][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.507][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.508][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.509][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.510][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 20:39:28.511][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:28.512][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.513][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-21 20:39:28.514][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:28.515][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.516][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.517][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.518][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:28.519][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:28.519][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:28.520][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:28.521][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:28.522][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:28.523][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.524][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.525][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:28.526][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:28.527][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.528][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.529][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-21 20:39:28.530][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.531][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 20:39:28.532][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.533][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:28.534][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.535][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.536][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.537][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.538][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 20:39:28.539][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:28.540][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.541][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-21 20:39:28.542][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:28.543][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.544][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.545][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.546][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:28.546][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:28.547][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:28.548][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:28.549][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:28.550][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:28.551][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.552][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.553][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:28.554][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:28.555][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.556][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.557][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 20:39:28.558][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.603][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[2024-05-21 20:39:28.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.629][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[2024-05-21 20:39:28.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.638][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-21 20:39:28.640][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-21 20:39:28.641][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-21 20:39:28.643][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-21 20:39:28.644][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 20:39:28.646][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-21 20:39:28.647][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-21 20:39:28.648][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-21 20:39:28.650][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-21 20:39:28.651][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-21 20:39:28.652][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 20:39:28.654][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-21 20:39:28.655][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-21 20:39:28.656][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-21 20:39:28.658][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-21 20:39:28.659][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-21 20:39:28.660][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-21 20:39:28.662][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-21 20:39:28.663][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 20:39:28.664][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-21 20:39:28.666][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-21 20:39:28.667][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-21 20:39:28.669][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-21 20:39:28.670][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-21 20:39:28.671][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-21 20:39:28.673][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-21 20:39:28.674][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-21 20:39:28.675][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-21 20:39:28.677][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-21 20:39:28.678][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-21 20:39:28.686][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-21 20:39:28.688][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-21 20:39:28.689][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-21 20:39:28.691][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-21 20:39:28.692][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-21 20:39:28.693][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-21 20:39:28.695][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-21 20:39:28.696][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-21 20:39:28.698][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-21 20:39:28.699][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-21 20:39:28.700][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-21 20:39:28.702][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-21 20:39:28.703][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-21 20:39:28.705][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-21 20:39:28.706][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-21 20:39:28.707][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-21 20:39:28.709][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-21 20:39:28.710][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-21 20:39:28.712][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-21 20:39:28.713][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-21 20:39:28.714][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-21 20:39:28.716][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-21 20:39:28.717][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-21 20:39:28.718][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-21 20:39:28.720][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-21 20:39:28.721][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-21 20:39:28.722][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-21 20:39:28.724][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-21 20:39:28.725][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-21 20:39:28.726][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-21 20:39:28.728][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-21 20:39:28.729][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-21 20:39:28.730][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-21 20:39:28.732][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-21 20:39:28.733][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-21 20:39:28.734][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-21 20:39:28.736][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 20:39:28.737][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 20:39:28.738][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-21 20:39:28.740][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-21 20:39:28.741][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-21 20:39:28.742][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-21 20:39:28.744][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-21 20:39:28.745][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-21 20:39:28.746][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-21 20:39:28.748][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-21 20:39:28.749][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-21 20:39:28.751][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-21 20:39:28.752][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-21 20:39:28.753][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-21 20:39:28.755][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-21 20:39:28.756][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-21 20:39:28.757][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-21 20:39:28.759][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-21 20:39:28.761][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-21 20:39:28.762][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 20:39:28.762][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.764][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:28.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:28.874][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-21 20:39:28.876][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:28.877][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.878][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.879][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.880][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:28.881][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.882][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-21 20:39:28.883][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.884][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.885][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-21 20:39:28.886][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:28.891][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.893][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-21 20:39:28.894][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-21 20:39:28.895][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-21 20:39:28.896][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:28.897][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 20:39:28.897][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-21 20:39:28.897][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-21 20:39:28.898][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-21 20:39:28.899][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:28.900][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:28.901][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:28.902][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:28.902][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:28.903][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:28.904][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-21 20:39:28.904][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-21 20:39:28.905][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:28.906][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:28.907][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:28.908][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:28.909][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-21 20:39:28.910][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-21 20:39:28.912][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-21 20:39:28.914][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 20:39:28.915][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-21 20:39:28.918][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:28.919][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-21 20:39:28.920][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:28.922][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-21 20:39:28.923][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:28.924][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:28.925][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-21 20:39:28.926][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-21 20:39:28.927][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-21 20:39:28.927][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-21 20:39:28.928][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:28.929][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:28.929][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-21 20:39:28.930][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-21 20:39:28.931][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:28.933][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-21 20:39:28.934][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:28.935][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:28.936][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-21 20:39:28.937][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:28.938][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-21 20:39:28.940][biodb::testThat]
biodb.INFO [2024-05-21 20:39:28.941][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-05-21 20:39:28.941][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:28.942][biodb::testThat]
biodb.DEBUG[2024-05-21 20:39:28.946][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.947][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.949][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-21 20:39:28.950][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.951][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-21 20:39:28.952][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-21 20:39:28.953][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-21 20:39:28.954][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-21 20:39:28.955][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-21 20:39:28.958][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-05-21 20:39:28.963][biodb::testThat]
biodb.INFO [2024-05-21 20:39:28.964][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-05-21 20:39:28.965][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:28.965][biodb::testThat]
biodb.DEBUG[2024-05-21 20:39:28.967][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-05-21 20:39:28.968][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-21 20:39:28.970][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:28.971][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-21 20:39:28.973][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-05-21 20:39:28.974][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 20:39:28.976][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-05-21 20:39:28.977][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 20:39:28.978][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-21 20:39:28.979][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-21 20:39:28.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:28.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:28.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:28.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:28.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:28.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:28.990][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.TRACE[2024-05-21 20:39:28.993][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:28.995][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:28.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.002][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.007][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:29.008][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:29.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.010][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.012][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:29.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:29.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.016][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:29.017][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:29.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.018][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.020][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:29.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:29.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.024][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:29.025][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:29.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.027][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.028][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:29.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:29.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.032][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:29.033][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:29.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.035][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:29.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:29.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.040][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:29.041][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:29.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.043][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:29.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:29.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.048][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:29.049][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:29.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.051][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.052][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:29.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:29.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.056][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:29.057][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:29.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.059][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.061][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:29.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:29.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.065][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:29.066][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:29.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.068][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.070][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:29.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:29.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.074][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:29.075][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:29.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.077][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.078][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:29.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:29.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.082][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:29.083][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:29.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.085][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.086][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:29.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:29.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.090][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:29.091][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:29.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.093][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:29.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:29.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.098][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.099][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.101][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.111][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:29.113][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:29.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.114][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:29.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:29.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.120][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:29.121][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:29.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.123][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:29.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:29.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.128][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:29.129][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:29.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.131][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.132][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:29.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:29.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.136][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:29.137][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:29.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.139][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.140][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:29.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:29.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.144][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-21 20:39:29.145][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:29.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.147][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.148][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-21 20:39:29.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:29.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.164][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:29.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:29.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.167][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:29.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:29.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.171][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:29.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:29.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.175][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:29.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:29.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.179][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:29.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:29.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.183][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:29.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:29.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:29.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:29.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:29.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:29.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:29.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:29.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:29.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:29.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:29.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:29.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:29.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:29.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.214][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:29.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:29.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.218][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:29.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:29.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.222][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:29.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:29.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.226][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:29.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:29.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.229][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:29.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:29.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.233][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:29.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:29.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:29.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:29.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.241][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:29.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:29.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.245][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:29.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:29.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.248][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:29.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:29.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.252][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:29.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:29.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.256][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:29.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:29.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.260][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:29.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:29.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:29.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:29.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.267][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:29.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:29.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:29.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:29.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:29.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:29.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:29.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:29.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.299][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:29.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:29.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.303][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:29.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:29.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.307][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:29.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:29.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:29.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:29.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:29.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:29.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:29.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:29.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.327][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:29.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:29.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:29.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:29.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.335][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:29.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:29.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.338][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:29.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:29.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.342][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:29.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:29.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.346][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:29.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:29.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.350][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:29.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:29.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.353][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:29.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:29.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.357][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:29.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:29.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.361][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:29.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:29.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.365][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:29.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:29.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.368][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:29.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:29.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.372][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-21 20:39:29.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.380][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.383][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.387][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-21 20:39:29.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:29.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.392][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:29.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:29.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.396][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:29.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:29.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.399][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:29.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:29.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:29.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:29.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.407][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:29.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:29.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.411][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:29.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:29.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.415][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:29.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:29.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.427][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:29.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:29.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:29.453][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-05-21 20:39:29.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:29.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:29.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:29.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:29.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-21 20:39:29.470][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-21 20:39:29.472][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-21 20:39:29.473][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-21 20:39:29.473][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-21 20:39:29.474][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.476][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.478][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-21 20:39:29.482][biodb::testContext]
biodb.INFO [2024-05-21 20:39:29.483][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 20:39:29.484][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-05-21 20:39:29.485][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 20:39:29.485][biodb::testContext]
biodb.INFO [2024-05-21 20:39:29.489][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-21 20:39:29.491][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-05-21 20:39:29.494][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 20:39:29.495][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-21 20:39:29.496][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-21 20:39:29.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.500][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-21 20:39:29.501][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-21 20:39:29.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.504][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-21 20:39:29.505][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-21 20:39:29.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.509][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-21 20:39:29.509][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-21 20:39:29.510][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-21 20:39:29.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.514][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-21 20:39:29.515][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-21 20:39:29.516][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-21 20:39:29.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.524][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-21 20:39:29.525][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-21 20:39:29.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.548][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-21 20:39:29.549][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-21 20:39:29.550][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-21 20:39:29.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.554][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-21 20:39:29.555][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-21 20:39:29.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.559][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-21 20:39:29.560][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-21 20:39:29.561][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-21 20:39:29.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.564][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[2024-05-21 20:39:29.565][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-21 20:39:29.566][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-21 20:39:29.567][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-21 20:39:29.569][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-21 20:39:29.570][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-21 20:39:29.571][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-21 20:39:29.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.575][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-21 20:39:29.576][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-21 20:39:29.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.579][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-21 20:39:29.580][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-21 20:39:29.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.584][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-21 20:39:29.585][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-21 20:39:29.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.588][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[2024-05-21 20:39:29.589][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-21 20:39:29.590][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-21 20:39:29.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.594][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-21 20:39:29.595][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-21 20:39:29.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.598][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-21 20:39:29.600][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-21 20:39:29.603][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-21 20:39:29.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.607][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-21 20:39:29.608][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-21 20:39:29.609][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-21 20:39:29.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.613][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-21 20:39:29.615][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.616][self$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[2024-05-21 20:39:29.617][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.618][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:29.619][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.620][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.621][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.622][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.623][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 20:39:29.624][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:29.625][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.626][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-21 20:39:29.627][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:29.628][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.629][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.630][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 20:39:29.630][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 20:39:29.630][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 20:39:29.630][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 20:39:29.630][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 20:39:29.631][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:29.632][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:29.633][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:29.634][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:29.635][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:29.636][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:29.637][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.638][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.639][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:29.640][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:29.641][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.642][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.643][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-21 20:39:29.645][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.646][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 20:39:29.647][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.648][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:29.649][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.650][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.655][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.657][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.658][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 20:39:29.659][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:29.660][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.661][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-21 20:39:29.662][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:29.663][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.663][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.664][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 20:39:29.664][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 20:39:29.664][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 20:39:29.664][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 20:39:29.664][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 20:39:29.665][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:29.666][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:29.667][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:29.668][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:29.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:29.670][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:29.671][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.672][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.673][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:29.673][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:29.674][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.675][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.676][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-21 20:39:29.678][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.679][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-21 20:39:29.680][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.681][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:29.682][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.683][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.684][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.685][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.686][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 20:39:29.687][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:29.688][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.689][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-21 20:39:29.690][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:29.690][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.691][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.692][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.693][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:29.694][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:29.695][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:29.696][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:29.697][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:29.698][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:29.699][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.700][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.700][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:29.701][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:29.702][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.703][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.704][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-21 20:39:29.706][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.707][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 20:39:29.708][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.709][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:29.710][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.711][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.711][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.712][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.713][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 20:39:29.714][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:29.715][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.716][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-21 20:39:29.717][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:29.718][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.719][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:29.720][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.721][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 20:39:29.722][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:29.723][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:29.724][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:29.724][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:29.725][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:29.726][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:29.727][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.728][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:29.729][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:29.730][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:29.731][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:29.732][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 20:39:29.733][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.811][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-21 20:39:29.812][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-21 20:39:29.814][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-21 20:39:29.815][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-21 20:39:29.816][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 20:39:29.818][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-21 20:39:29.819][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-21 20:39:29.820][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-21 20:39:29.822][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-21 20:39:29.823][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-21 20:39:29.824][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 20:39:29.825][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-21 20:39:29.827][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-21 20:39:29.828][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-21 20:39:29.829][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-21 20:39:29.831][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-21 20:39:29.832][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-21 20:39:29.833][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-21 20:39:29.835][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 20:39:29.836][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-21 20:39:29.837][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-21 20:39:29.839][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-21 20:39:29.840][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-21 20:39:29.841][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-21 20:39:29.843][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-21 20:39:29.844][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-21 20:39:29.845][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-21 20:39:29.851][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-21 20:39:29.853][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-21 20:39:29.854][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-21 20:39:29.855][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-21 20:39:29.857][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-21 20:39:29.858][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-21 20:39:29.859][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-21 20:39:29.860][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-21 20:39:29.862][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-21 20:39:29.863][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-21 20:39:29.864][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-21 20:39:29.866][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-21 20:39:29.867][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-21 20:39:29.868][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-21 20:39:29.870][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-21 20:39:29.871][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-21 20:39:29.872][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-21 20:39:29.874][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-21 20:39:29.875][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-21 20:39:29.876][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-21 20:39:29.878][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-21 20:39:29.879][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-21 20:39:29.880][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-21 20:39:29.881][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-21 20:39:29.883][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-21 20:39:29.884][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-21 20:39:29.885][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-21 20:39:29.887][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-21 20:39:29.888][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-21 20:39:29.889][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-21 20:39:29.891][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-21 20:39:29.892][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-21 20:39:29.893][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-21 20:39:29.895][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-21 20:39:29.896][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-21 20:39:29.897][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-21 20:39:29.899][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-21 20:39:29.900][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-21 20:39:29.901][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-21 20:39:29.903][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 20:39:29.904][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 20:39:29.905][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-21 20:39:29.907][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-21 20:39:29.908][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-21 20:39:29.909][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-21 20:39:29.910][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-21 20:39:29.912][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-21 20:39:29.913][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-21 20:39:29.914][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-21 20:39:29.916][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-21 20:39:29.917][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-21 20:39:29.918][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-21 20:39:29.920][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-21 20:39:29.921][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-21 20:39:29.922][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-21 20:39:29.923][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-21 20:39:29.925][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-21 20:39:29.926][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-21 20:39:29.927][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 20:39:29.928][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.930][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.947][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[2024-05-21 20:39:29.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.971][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[2024-05-21 20:39:29.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.989][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[2024-05-21 20:39:29.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:29.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:29.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:29.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:29.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:29.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:29.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:29.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:30.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:30.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:30.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:30.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:30.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:30.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:30.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:30.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:30.006][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[2024-05-21 20:39:30.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:30.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:30.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:30.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:30.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:30.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:30.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:30.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:30.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:30.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:30.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:30.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:30.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:30.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:30.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:30.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:30.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:30.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:30.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:30.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:30.024][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[2024-05-21 20:39:30.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:30.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:30.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:30.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:30.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:30.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:30.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:30.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 20:39:30.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:30.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:30.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:30.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:30.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:30.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:30.037][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-21 20:39:30.043][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:30.045][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:30.046][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-21 20:39:30.047][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:30.048][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 20:39:30.049][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:30.050][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-21 20:39:30.050][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:30.051][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 20:39:30.052][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-21 20:39:30.053][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 20:39:30.054][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:30.055][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-21 20:39:30.056][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-21 20:39:30.057][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-21 20:39:30.058][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-21 20:39:30.059][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 20:39:30.059][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-21 20:39:30.059][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-21 20:39:30.060][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-21 20:39:30.061][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:30.062][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:30.063][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 20:39:30.064][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 20:39:30.065][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 20:39:30.065][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 20:39:30.066][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-21 20:39:30.066][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-21 20:39:30.067][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:30.068][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:30.069][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-21 20:39:30.070][self$setPropertyValue]
biodb.DEBUG[2024-05-21 20:39:30.071][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-21 20:39:30.073][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-21 20:39:30.074][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-21 20:39:30.076][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 20:39:30.077][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-21 20:39:30.080][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:30.081][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-21 20:39:30.082][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:30.083][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-21 20:39:30.085][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:30.085][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:30.087][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-21 20:39:30.088][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-21 20:39:30.089][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-21 20:39:30.089][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-21 20:39:30.090][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 20:39:30.090][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 20:39:30.091][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-21 20:39:30.092][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-21 20:39:30.093][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-21 20:39:30.094][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-21 20:39:30.095][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:30.096][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:30.098][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-21 20:39:30.099][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 20:39:30.100][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-21 20:39:30.101][biodb::testThat]
biodb.INFO [2024-05-21 20:39:30.102][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-05-21 20:39:30.103][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 20:39:30.104][biodb::testThat]
biodb.DEBUG[2024-05-21 20:39:30.106][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-21 20:39:30.107][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-05-21 20:39:30.108][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-05-21 20:39:30.111][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:30.112][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:30.113][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-21 20:39:30.115][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:30.115][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-21 20:39:30.117][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-21 20:39:30.118][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-21 20:39:30.119][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-21 20:39:30.119][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-21 20:39:30.120][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-21 20:39:30.121][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-05-21 20:39:30.123][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-05-21 20:39:30.124][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-21 20:39:30.125][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:30.127][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-21 20:39:30.129][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-05-21 20:39:30.130][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 20:39:30.131][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-05-21 20:39:30.133][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 20:39:30.134][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-21 20:39:30.135][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-21 20:39:30.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:30.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:30.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:30.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:30.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:30.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:30.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 20:39:30.154][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.155][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.157][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.162][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.162][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.164][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.166][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.169][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.170][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.172][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.173][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.177][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.178][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.180][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.181][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.185][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.186][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.188][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.193][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.194][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.196][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.201][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.202][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.204][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.205][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.209][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.210][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.211][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.213][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.217][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.218][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.219][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.225][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.225][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.227][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.229][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.232][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:30.233][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:30.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.235][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.236][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:30.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:30.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.244][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:30.246][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:30.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.248][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:30.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:30.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.253][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.254][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.255][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.260][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.261][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.263][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.268][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.269][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.271][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.272][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.276][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.277][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.279][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.280][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.284][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:30.285][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:30.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.287][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.288][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:30.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:30.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.292][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-21 20:39:30.293][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.294][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.296][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-21 20:39:30.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.311][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.315][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.318][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.322][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.326][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.330][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.366][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.370][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.374][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.378][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.381][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.385][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.389][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.393][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.396][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.400][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.404][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.407][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.411][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:30.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:30.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.415][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:30.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:30.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.419][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:30.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:30.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:30.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:30.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:30.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:30.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:30.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:30.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.449][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.454][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.458][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.484][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.488][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.491][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.495][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.499][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.503][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.507][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:30.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:30.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.510][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:30.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:30.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.514][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:30.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:30.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.518][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-21 20:39:30.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.533][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-21 20:39:30.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.538][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.542][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.554][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.563][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:30.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:30.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.566][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:30.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:30.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.574][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:30.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:30.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:30.601][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-21 20:39:30.602][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.606][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.609][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.613][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:30.617][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-21 20:39:30.618][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-21 20:39:30.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:30.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:30.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:30.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:30.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:30.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:30.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:30.628][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-05-21 20:39:30.629][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-21 20:39:30.631][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:30.632][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-21 20:39:30.634][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-05-21 20:39:30.635][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 20:39:30.637][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-05-21 20:39:30.638][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 20:39:30.639][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-21 20:39:30.640][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-21 20:39:30.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:30.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:30.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:30.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:30.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:30.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:30.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 20:39:30.658][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.659][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.661][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.667][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.668][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.670][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.671][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:30.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.675][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.676][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.677][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.679][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.683][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.684][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.686][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.687][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.694][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.699][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.700][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.702][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.707][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.708][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.710][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.711][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.715][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.716][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.718][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.719][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.723][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.724][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.726][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.727][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.731][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.732][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.734][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.735][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.739][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:30.740][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:30.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.742][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.743][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:30.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:30.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.747][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:30.748][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:30.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.750][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:30.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:30.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.755][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.756][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.763][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.769][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.770][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.772][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.777][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.778][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.780][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.781][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.785][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.786][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.788][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.789][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.793][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:30.794][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:30.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.796][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.798][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:30.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:30.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.801][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-21 20:39:30.803][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.804][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.806][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-21 20:39:30.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:30.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:30.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.822][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.826][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.830][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 20:39:30.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.834][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.838][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.841][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-21 20:39:30.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 20:39:30.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-21 20:39:30.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.874][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.878][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.882][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-21 20:39:30.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.886][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.889][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.893][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-21 20:39:30.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.897][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.901][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.905][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-21 20:39:30.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.909][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.912][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.916][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:30.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:30.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.920][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:30.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:30.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.924][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:30.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:30.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 20:39:30.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 20:39:30.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:30.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:30.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:30.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:30.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 20:39:30.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 20:39:30.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.951][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:30.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.955][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.959][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.962][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 20:39:30.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 20:39:30.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.987][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.991][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:30.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:30.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.995][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:30.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:30.998][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:30.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:31.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.002][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:31.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-21 20:39:31.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.006][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:31.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:31.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.010][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:31.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:31.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.014][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:31.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-21 20:39:31.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.017][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:31.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:31.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.021][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:31.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:31.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.025][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 20:39:31.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 20:39:31.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.029][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-21 20:39:31.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:31.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:31.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:31.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:31.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:31.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 20:39:31.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:31.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.044][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-21 20:39:31.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 20:39:31.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.049][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:31.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:31.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.053][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:31.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:31.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.057][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:31.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:31.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:31.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:31.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.064][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 20:39:31.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 20:39:31.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.068][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:31.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:31.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.077][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:31.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:31.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:31.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:31.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.085][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:31.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-21 20:39:31.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:31.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:31.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:31.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:31.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:31.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:31.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:31.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:31.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:31.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:31.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 20:39:31.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 20:39:31.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:31.112][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-05-21 20:39:31.113][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.117][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.121][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.125][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:31.129][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-21 20:39:31.130][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-05-21 20:39:31.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:31.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:31.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:31.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:31.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:31.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:31.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:31.145][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-21 20:39:31.146][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-05-21 20:39:31.147][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-05-21 20:39:31.149][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:31.150][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:31.151][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-21 20:39:31.153][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:31.153][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-21 20:39:31.155][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-21 20:39:31.156][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-21 20:39:31.157][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-21 20:39:31.158][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-21 20:39:31.159][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-21 20:39:31.159][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-21 20:39:31.161][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.169][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.173][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.182][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.186][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.190][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:31.194][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-21 20:39:31.195][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-21 20:39:31.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:31.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:31.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:31.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:31.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:31.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:31.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 20:39:31.206][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.210][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.214][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.217][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.225][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.230][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.234][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:31.239][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-05-21 20:39:31.240][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-21 20:39:31.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:31.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:31.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:31.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:31.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:31.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:31.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 20:39:31.259][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-21 20:39:31.261][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-05-21 20:39:31.262][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-05-21 20:39:31.264][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:31.265][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:31.267][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-21 20:39:31.268][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-21 20:39:31.269][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-21 20:39:31.271][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-21 20:39:31.272][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-21 20:39:31.273][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-21 20:39:31.274][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-21 20:39:31.275][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-21 20:39:31.276][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-21 20:39:31.278][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.283][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.287][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.291][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.309][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.315][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.320][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:31.324][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-05-21 20:39:31.325][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-05-21 20:39:31.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:31.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:31.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:31.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:31.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:31.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:31.335][FUN] Functions in observer BiodbConfig: [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[2024-05-21 20:39:31.336][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.341][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.345][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.349][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.353][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.357][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 20:39:31.361][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-21 20:39:31.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-21 20:39:31.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 20:39:31.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 20:39:31.364][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-21 20:39:31.365][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-21 20:39:31.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 20:39:31.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:31.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:31.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:31.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:31.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:31.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-21 20:39:31.381][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-21 20:39:31.382][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-21 20:39:31.383][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-21 20:39:31.384][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-21 20:39:31.384][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 20:39:31.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 20:39:31.386][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 20:39:31.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 20:39:31.388][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 20:39:31.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
8.770 0.506 24.405