Pierrick Roger
| Snapshot Date: 2024-06-12 14:00 -0400 (Wed, 12 Jun 2024) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: RELEASE_3_19 |
| git_last_commit: a7f41b2 |
| git_last_commit_date: 2024-04-30 11:39:05 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-06-14 14:37 -0400 (Fri, 14 Jun 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" | 4757 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4491 |
| 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 | | ||||||||
|
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: 2024-06-12 21:01:26 -0400 (Wed, 12 Jun 2024) |
| EndedAt: 2024-06-12 21:02:15 -0400 (Wed, 12 Jun 2024) |
| EllapsedTime: 49.1 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 [2024-06-12 21:01:58.776][biodb::testContext]
biodb.INFO [2024-06-12 21:01:58.779][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-12 21:01:58.780][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-06-12 21:01:58.781][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-12 21:01:58.782][biodb::testContext]
biodb.INFO [2024-06-12 21:01:58.785][biodb::testThat]
biodb.INFO [2024-06-12 21:01:58.786][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-06-12 21:01:58.787][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:01:58.788][biodb::testThat]
biodb.INFO [2024-06-12 21:01:58.901][biodb::testContext]
biodb.INFO [2024-06-12 21:01:58.902][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-12 21:01:58.903][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-06-12 21:01:58.904][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-12 21:01:58.905][biodb::testContext]
biodb.INFO [2024-06-12 21:01:58.914][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-12 21:01:58.916][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-06-12 21:01:58.926][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-12 21:01:58.940][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-12 21:01:58.941][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-12 21:01:58.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:58.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:58.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:58.945][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-12 21:01:58.963][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-12 21:01:58.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:58.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:58.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:58.967][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-12 21:01:58.968][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-12 21:01:58.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:58.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:58.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:58.971][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-12 21:01:58.972][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-12 21:01:58.974][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-12 21:01:58.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:58.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:58.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:58.977][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-12 21:01:58.978][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-12 21:01:58.979][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-12 21:01:58.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:58.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:58.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:58.983][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-12 21:01:58.984][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-12 21:01:58.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:58.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:58.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:58.987][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-12 21:01:58.988][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-12 21:01:58.989][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-12 21:01:58.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:58.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:58.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:58.993][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-12 21:01:58.994][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-12 21:01:58.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:58.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:58.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:58.997][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-12 21:01:58.998][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-12 21:01:58.999][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-12 21:01:59.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.003][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-12 21:01:59.004][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-12 21:01:59.005][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-12 21:01:59.006][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-12 21:01:59.007][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-12 21:01:59.008][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-12 21:01:59.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.011][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-12 21:01:59.012][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-12 21:01:59.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.016][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-12 21:01:59.017][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-12 21:01:59.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.020][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-12 21:01:59.021][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-12 21:01:59.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.025][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-12 21:01:59.026][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-12 21:01:59.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.029][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-12 21:01:59.030][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-12 21:01:59.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.033][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-12 21:01:59.034][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-12 21:01:59.037][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-12 21:01:59.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.041][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-12 21:01:59.042][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-12 21:01:59.043][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-12 21:01:59.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.049][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-12 21:01:59.082][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.097][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-12 21:01:59.098][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.099][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:01:59.100][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.101][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.102][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.103][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.104][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-12 21:01:59.110][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:01:59.111][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.112][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-12 21:01:59.113][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:01:59.114][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.115][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.115][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-12 21:01:59.115][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-12 21:01:59.115][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-12 21:01:59.115][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-12 21:01:59.115][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-12 21:01:59.116][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:01:59.117][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:01:59.118][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:01:59.119][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:01:59.120][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:01:59.121][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:01:59.122][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.123][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.123][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:01:59.124][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:01:59.125][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.126][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.127][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-12 21:01:59.129][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.130][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-12 21:01:59.131][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.132][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:01:59.132][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.133][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.134][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.135][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.136][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-12 21:01:59.137][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:01:59.138][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.139][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-12 21:01:59.140][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:01:59.141][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.142][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.143][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-12 21:01:59.143][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-12 21:01:59.143][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-12 21:01:59.143][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-12 21:01:59.143][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-12 21:01:59.144][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:01:59.145][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:01:59.145][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:01:59.146][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:01:59.147][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:01:59.148][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:01:59.149][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.150][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.151][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:01:59.151][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:01:59.152][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.153][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.154][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-12 21:01:59.156][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.157][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-12 21:01:59.158][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.159][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:01:59.160][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.161][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.162][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.163][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.164][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-12 21:01:59.164][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:01:59.165][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.166][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-12 21:01:59.167][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:01:59.168][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.169][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.170][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.171][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:01:59.172][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:01:59.173][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:01:59.174][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:01:59.175][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:01:59.175][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:01:59.176][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.177][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.178][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:01:59.179][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:01:59.180][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.181][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.182][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-12 21:01:59.183][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.184][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-12 21:01:59.185][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.186][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:01:59.187][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.188][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.189][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.190][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.191][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-12 21:01:59.192][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:01:59.193][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.194][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-12 21:01:59.195][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:01:59.196][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.197][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.198][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.198][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:01:59.199][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:01:59.200][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:01:59.201][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:01:59.202][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:01:59.203][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:01:59.204][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.205][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.206][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:01:59.207][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:01:59.207][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.208][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.212][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-12 21:01:59.213][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.291][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-12 21:01:59.296][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-12 21:01:59.297][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-12 21:01:59.299][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-12 21:01:59.300][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-12 21:01:59.301][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-12 21:01:59.303][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-12 21:01:59.304][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-12 21:01:59.305][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-12 21:01:59.306][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-12 21:01:59.308][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-12 21:01:59.309][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-12 21:01:59.310][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-12 21:01:59.312][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-12 21:01:59.313][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-12 21:01:59.314][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-12 21:01:59.316][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-12 21:01:59.317][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-12 21:01:59.318][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-12 21:01:59.320][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-12 21:01:59.321][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-12 21:01:59.322][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-12 21:01:59.323][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-12 21:01:59.325][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-12 21:01:59.326][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-12 21:01:59.327][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-12 21:01:59.329][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-12 21:01:59.330][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-12 21:01:59.331][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-12 21:01:59.332][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-12 21:01:59.334][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-12 21:01:59.335][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-12 21:01:59.336][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-12 21:01:59.338][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-12 21:01:59.339][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-12 21:01:59.340][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-12 21:01:59.342][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-12 21:01:59.343][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-12 21:01:59.344][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-12 21:01:59.345][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-12 21:01:59.347][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-12 21:01:59.348][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-12 21:01:59.349][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-12 21:01:59.351][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-12 21:01:59.352][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-12 21:01:59.353][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-12 21:01:59.354][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-12 21:01:59.356][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-12 21:01:59.357][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-12 21:01:59.358][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-12 21:01:59.360][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-12 21:01:59.361][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-12 21:01:59.362][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-12 21:01:59.364][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-12 21:01:59.365][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-12 21:01:59.366][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-12 21:01:59.367][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-12 21:01:59.369][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-12 21:01:59.370][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-12 21:01:59.371][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-12 21:01:59.373][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-12 21:01:59.374][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-12 21:01:59.375][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-12 21:01:59.377][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-12 21:01:59.378][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-12 21:01:59.379][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-12 21:01:59.381][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-12 21:01:59.382][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-12 21:01:59.383][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-12 21:01:59.385][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-12 21:01:59.386][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-12 21:01:59.387][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-12 21:01:59.389][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-12 21:01:59.390][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-12 21:01:59.391][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-12 21:01:59.392][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-12 21:01:59.394][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-12 21:01:59.395][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-12 21:01:59.396][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-12 21:01:59.398][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-12 21:01:59.399][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-12 21:01:59.400][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-12 21:01:59.402][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-12 21:01:59.407][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-12 21:01:59.409][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-12 21:01:59.412][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-12 21:01:59.413][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.414][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.431][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[2024-06-12 21:01:59.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:01:59.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:01:59.526][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-06-12 21:01:59.536][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:01:59.538][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.539][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.540][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.541][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:01:59.542][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.543][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-06-12 21:01:59.544][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.545][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.546][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-12 21:01:59.547][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:01:59.548][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.548][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-06-12 21:01:59.549][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-06-12 21:01:59.550][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-06-12 21:01:59.552][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-12 21:01:59.553][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-12 21:01:59.553][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-06-12 21:01:59.553][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-06-12 21:01:59.553][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-12 21:01:59.554][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:01:59.555][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:01:59.556][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:01:59.557][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:01:59.558][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:01:59.559][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:01:59.560][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-12 21:01:59.560][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-06-12 21:01:59.561][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:01:59.562][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:01:59.562][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-12 21:01:59.563][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:01:59.569][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-06-12 21:01:59.571][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-12 21:01:59.572][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-12 21:01:59.574][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-12 21:01:59.575][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-12 21:01:59.599][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:01:59.601][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-06-12 21:01:59.605][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:01:59.610][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-12 21:01:59.615][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:01:59.616][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:01:59.617][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-06-12 21:01:59.658][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-06-12 21:01:59.659][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-12 21:01:59.659][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-06-12 21:01:59.660][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:01:59.661][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:01:59.662][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-06-12 21:01:59.663][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-06-12 21:01:59.664][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:01:59.680][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-12 21:01:59.682][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:01:59.683][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:01:59.684][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-12 21:01:59.686][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:01:59.687][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-06-12 21:01:59.695][biodb::testThat]
biodb.INFO [2024-06-12 21:01:59.697][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-06-12 21:01:59.697][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:01:59.698][biodb::testThat]
biodb.TRACE[2024-06-12 21:01:59.703][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-06-12 21:01:59.705][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-12 21:01:59.708][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-12 21:01:59.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:01:59.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:01:59.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:01:59.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:01:59.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:01:59.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:01:59.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-12 21:01:59.739][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:01:59.740][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:01:59.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.742][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:01:59.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:01:59.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.759][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:01:59.760][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:01:59.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.762][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.788][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:01:59.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:01:59.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.792][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:01:59.793][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:01:59.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.795][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.796][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:01:59.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:01:59.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.800][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:01:59.801][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:01:59.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.803][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.804][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:01:59.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:01:59.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:01:59.809][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:01:59.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.811][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:01:59.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:01:59.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.824][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:01:59.825][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:01:59.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.826][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:01:59.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:01:59.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.832][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:01:59.833][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:01:59.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.834][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.836][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:01:59.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:01:59.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.840][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:01:59.841][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:01:59.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.842][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.844][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:01:59.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:01:59.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.848][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:01:59.849][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:01:59.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.851][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.852][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:01:59.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:01:59.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.856][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:01:59.857][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:01:59.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.859][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.860][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:01:59.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:01:59.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.864][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:01:59.866][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:01:59.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.867][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.869][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:01:59.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:01:59.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.873][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:01:59.874][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:01:59.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.876][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:01:59.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:01:59.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.881][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:01:59.882][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:01:59.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.884][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.886][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:01:59.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:01:59.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.890][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:01:59.891][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:01:59.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.893][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:01:59.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:01:59.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.898][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:01:59.899][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:01:59.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.901][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:01:59.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:01:59.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.907][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:01:59.908][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:01:59.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.909][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.911][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:01:59.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:01:59.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.915][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:01:59.916][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:01:59.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.917][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.919][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:01:59.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:01:59.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.923][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-12 21:01:59.924][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:01:59.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.926][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.927][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-12 21:01:59.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:01:59.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:01:59.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:01:59.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:01:59.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:01:59.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:01:59.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:01:59.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.979][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:01:59.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:01:59.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.984][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:01:59.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:01:59.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.988][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:01:59.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:01:59.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.992][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:01:59.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:01:59.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:01:59.996][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:01:59.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:01:59.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:01:59.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.000][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.027][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.031][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.035][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.039][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.042][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.046][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.050][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.054][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.058][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.062][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:00.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:00.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.065][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:00.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:00.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.069][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:00.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:00.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.073][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:00.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:00.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.077][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:00.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:00.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.081][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:00.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:00.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:00.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:00.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.089][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:00.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:00.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:00.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:00.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.096][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.119][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.124][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.128][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.144][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.152][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.155][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.159][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.163][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.167][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.171][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.175][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.179][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:00.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:00.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.183][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:00.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:00.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.186][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:00.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:00.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.190][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-12 21:02:00.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.202][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.206][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-12 21:02:00.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.230][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.235][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.257][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.261][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.269][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:00.298][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-06-12 21:02:00.300][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-12 21:02:00.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-12 21:02:00.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.304][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-12 21:02:00.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-12 21:02:00.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.309][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-12 21:02:00.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-12 21:02:00.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.313][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-12 21:02:00.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-12 21:02:00.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.342][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.376][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.380][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.384][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:00.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.418][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.419][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.421][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.433][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.437][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.441][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.445][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.447][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.448][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.449][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:00.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.473][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.474][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.476][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.488][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.493][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.497][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.501][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.502][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.504][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.505][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:00.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.528][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.529][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.531][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.543][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.547][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.551][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.555][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.556][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.563][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.564][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.575][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.580][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.583][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.587][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.588][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.590][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:00.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:00.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.603][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:00.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:00.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.607][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:00.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:00.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.611][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:00.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:00.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.615][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:00.616][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:00.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.618][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.619][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:00.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:00.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.630][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:00.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:00.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:00.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:00.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.638][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:00.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:00.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.642][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:00.643][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:00.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.645][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.646][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:00.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:00.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.657][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.661][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.665][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.668][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.669][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.672][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.695][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.696][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.698][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:00.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.716][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.720][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.724][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.728][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.729][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.731][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.732][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.743][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.747][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.751][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.755][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.756][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.758][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.759][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.770][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.774][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.777][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.781][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.782][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.784][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.785][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.796][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:00.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:00.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.800][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:00.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:00.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.804][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:00.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:00.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.807][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:00.808][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:00.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.810][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.811][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:00.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:00.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:00.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:00.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:00.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:00.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.830][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:00.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:00.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.833][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:00.834][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:00.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.836][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:00.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:00.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.861][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.865][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.866][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.868][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.880][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.883][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.887][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.891][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.892][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.894][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.895][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.906][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:00.907][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:00.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.909][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.913][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.914][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:00.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.916][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.920][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.921][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:00.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.923][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.928][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:00.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.930][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.934][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.935][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:00.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.937][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.941][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.942][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:00.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.944][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.948][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.949][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:00.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.951][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.955][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.956][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:00.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.958][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.962][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:00.963][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:00.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.965][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.969][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:00.970][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:00.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.972][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.976][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:00.977][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:00.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.979][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.988][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.990][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:00.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.991][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:00.996][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.997][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:00.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:00.999][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.003][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.004][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.006][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.010][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.012][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.013][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.018][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.019][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.021][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.025][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.026][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.028][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.033][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:01.034][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:01.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.036][ef$get] fields variable is a list.
biodb.INFO [2024-06-12 21:02:01.043][biodb::testThat]
biodb.INFO [2024-06-12 21:02:01.044][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-06-12 21:02:01.045][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:01.046][biodb::testThat]
biodb.DEBUG[2024-06-12 21:02:01.061][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-06-12 21:02:01.069][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-12 21:02:01.075][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:01.077][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-12 21:02:01.079][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-06-12 21:02:01.080][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-12 21:02:01.082][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-06-12 21:02:01.083][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-12 21:02:01.108][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-12 21:02:01.109][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-12 21:02:01.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:01.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:01.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:01.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:01.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:01.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:01.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-12 21:02:01.125][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.126][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.128][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.140][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.141][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.143][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.145][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.149][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:01.150][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:01.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.151][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.153][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:01.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:01.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.157][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:01.158][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:01.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.160][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.161][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:01.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:01.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.165][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:01.166][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:01.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.168][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:01.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:01.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.174][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:01.175][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:01.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.177][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:01.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:01.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.182][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:01.183][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:01.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.185][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.187][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:01.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:01.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.191][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.192][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.196][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.200][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:01.201][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:01.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.203][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.205][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:01.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:01.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.209][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:01.210][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:01.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.212][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.213][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:01.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:01.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.217][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:01.218][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:01.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.220][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.222][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:01.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:01.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.226][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:01.227][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:01.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.228][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:01.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:01.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.234][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.235][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.237][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.245][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.250][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.253][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.258][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.259][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.261][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.262][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.266][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:01.267][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:01.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.269][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.270][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:01.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:01.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.274][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-12 21:02:01.280][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:01.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.282][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.283][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-12 21:02:01.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:01.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.298][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:01.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:01.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.302][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:01.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:01.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.305][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:01.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:01.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.309][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:01.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:01.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.313][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:01.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:01.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.317][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:01.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:01.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:01.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:01.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:01.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:01.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:01.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:01.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:01.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:01.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:01.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:01.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:01.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:01.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.343][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:01.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:01.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.347][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:01.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:01.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.351][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:01.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:01.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.354][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:01.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:01.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.358][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:01.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:01.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.362][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:01.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:01.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.366][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:01.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:01.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.369][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:01.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:01.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.373][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:01.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:01.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.377][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.381][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.384][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.388][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:01.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:01.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.392][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:01.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:01.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:01.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:01.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:01.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:01.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:01.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:01.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:01.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:01.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.423][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.426][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:01.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:01.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.430][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:01.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:01.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.434][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:01.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:01.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:01.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.460][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.464][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.468][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:01.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.471][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.475][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.479][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.483][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:01.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:01.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.487][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:01.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:01.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.490][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:01.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:01.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.494][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-12 21:02:01.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.509][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-12 21:02:01.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:01.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.514][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.521][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.525][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.532][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:01.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:01.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.536][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:01.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:01.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.548][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:01.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:01.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:01.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:01.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:01.574][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-06-12 21:02:01.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-12 21:02:01.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-12 21:02:01.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-12 21:02:01.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-12 21:02:01.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-12 21:02:01.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-12 21:02:01.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-12 21:02:01.593][biodb::testThat]
biodb.INFO [2024-06-12 21:02:01.594][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-06-12 21:02:01.595][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:01.596][biodb::testThat]
biodb.TRACE[2024-06-12 21:02:01.599][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.600][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.602][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:01.604][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-06-12 21:02:01.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.636][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:01.643][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-06-12 21:02:01.644][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-06-12 21:02:01.645][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-12 21:02:01.646][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-12 21:02:01.648][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:01.649][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:01.650][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-12 21:02:01.652][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:01.653][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-12 21:02:01.654][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-12 21:02:01.655][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-12 21:02:01.656][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-12 21:02:01.657][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-12 21:02:01.658][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-12 21:02:01.659][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-12 21:02:01.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.665][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.677][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:01.681][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-12 21:02:01.682][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-12 21:02:01.683][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-06-12 21:02:01.693][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.694][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.696][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:01.697][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-06-12 21:02:01.707][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.711][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.715][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:01.721][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2024-06-12 21:02:01.776][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-12 21:02:01.777][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-06-12 21:02:01.779][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-06-12 21:02:01.802][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:01.805][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:01.806][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-12 21:02:01.808][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:01.809][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-12 21:02:01.826][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-12 21:02:01.828][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-12 21:02:01.830][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-12 21:02:01.831][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-12 21:02:01.832][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-12 21:02:01.833][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-12 21:02:01.835][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.840][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.844][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.848][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:01.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:01.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:01.852][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-12 21:02:01.853][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-12 21:02:01.854][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-06-12 21:02:01.871][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.873][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.876][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:01.877][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-06-12 21:02:01.891][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.897][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.901][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:01.910][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-06-12 21:02:01.912][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-06-12 21:02:01.913][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-06-12 21:02:01.915][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-06-12 21:02:01.917][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:01.919][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:01.921][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-12 21:02:01.923][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:01.924][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-12 21:02:01.927][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-12 21:02:01.928][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-12 21:02:01.930][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-12 21:02:01.931][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-12 21:02:01.933][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-12 21:02:01.934][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-12 21:02:01.937][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.942][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.947][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.951][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:01.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:01.955][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-12 21:02:01.956][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-12 21:02:01.957][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-06-12 21:02:01.979][biodb::testThat]
biodb.INFO [2024-06-12 21:02:01.981][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-06-12 21:02:01.982][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:01.983][biodb::testThat]
biodb.TRACE[2024-06-12 21:02:01.994][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:01.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:01.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:01.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:01.999][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:02.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:02.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:02.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:02.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:02.021][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-06-12 21:02:02.022][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-12 21:02:02.023][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-06-12 21:02:02.025][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:02.027][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:02.028][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-12 21:02:02.030][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:02.031][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-12 21:02:02.032][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-12 21:02:02.033][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-12 21:02:02.034][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-12 21:02:02.035][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-12 21:02:02.036][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-12 21:02:02.037][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-12 21:02:02.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:02.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:02.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.044][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:02.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:02.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.049][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:02.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:02.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.053][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:02.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:02.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:02.057][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-12 21:02:02.058][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-06-12 21:02:02.073][biodb::testThat]
biodb.INFO [2024-06-12 21:02:02.075][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-06-12 21:02:02.076][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:02.077][biodb::testThat]
biodb.TRACE[2024-06-12 21:02:02.098][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-12 21:02:02.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-12 21:02:02.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.103][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-12 21:02:02.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-12 21:02:02.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-12 21:02:02.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-12 21:02:02.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.111][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-12 21:02:02.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-12 21:02:02.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.166][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-12 21:02:02.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-12 21:02:02.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.171][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-12 21:02:02.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-12 21:02:02.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.175][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-12 21:02:02.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-12 21:02:02.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:02.180][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-12 21:02:02.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-12 21:02:02.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:02.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-12 21:02:02.191][biodb::testThat]
biodb.INFO [2024-06-12 21:02:02.192][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-06-12 21:02:02.193][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:02.194][biodb::testThat]
biodb.INFO [2024-06-12 21:02:02.202][biodb::testThat]
biodb.INFO [2024-06-12 21:02:02.204][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-06-12 21:02:02.205][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:02.206][biodb::testThat]
biodb.INFO [2024-06-12 21:02:02.214][biodb::testThat]
biodb.INFO [2024-06-12 21:02:02.216][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-06-12 21:02:02.217][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:02.218][biodb::testThat]
biodb.DEBUG[2024-06-12 21:02:02.222][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-06-12 21:02:03.187][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-06-12 21:02:03.214][biodb::testThat]
biodb.INFO [2024-06-12 21:02:03.215][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-06-12 21:02:03.216][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:03.217][biodb::testThat]
biodb.DEBUG[2024-06-12 21:02:03.529][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-06-12 21:02:03.563][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:03.565][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:03.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.569][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.571][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:03.573][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:03.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.576][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.577][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:03.579][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:03.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.582][ef$get] fields variable is a list.
biodb.INFO [2024-06-12 21:02:03.585][biodb::testThat]
biodb.INFO [2024-06-12 21:02:03.586][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-06-12 21:02:03.588][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:03.589][biodb::testThat]
biodb.DEBUG[2024-06-12 21:02:03.593][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-06-12 21:02:03.697][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-12 21:02:03.701][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:03.703][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-12 21:02:03.733][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-06-12 21:02:03.745][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-12 21:02:03.747][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-12 21:02:03.749][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-12 21:02:03.751][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:03.752][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-12 21:02:03.754][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-12 21:02:03.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:03.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:03.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:03.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:03.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:03.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:03.768][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.TRACE[2024-06-12 21:02:03.771][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:03.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:03.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.775][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:03.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:03.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:03.823][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-06-12 21:02:03.824][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-06-12 21:02:03.841][biodb::testThat]
biodb.INFO [2024-06-12 21:02:03.843][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-06-12 21:02:03.844][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:03.845][biodb::testThat]
biodb.DEBUG[2024-06-12 21:02:03.853][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-06-12 21:02:03.855][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-06-12 21:02:03.856][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-12 21:02:03.857][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:03.859][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-12 21:02:03.861][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-06-12 21:02:03.862][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-12 21:02:03.863][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-12 21:02:03.864][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-12 21:02:03.866][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:03.867][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-12 21:02:03.868][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-12 21:02:03.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:03.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:03.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:03.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:03.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:03.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:03.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-12 21:02:03.881][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:03.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:03.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.885][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:03.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:03.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:03.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:03.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:03.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:03.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:03.941][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-06-12 21:02:03.942][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-06-12 21:02:03.943][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-06-12 21:02:03.954][biodb::testThat]
biodb.INFO [2024-06-12 21:02:03.955][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-06-12 21:02:03.956][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:03.957][biodb::testThat]
biodb.INFO [2024-06-12 21:02:03.976][biodb::testThat]
biodb.INFO [2024-06-12 21:02:03.977][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-06-12 21:02:03.978][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:03.979][biodb::testThat]
biodb.DEBUG[2024-06-12 21:02:03.981][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:03.982][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:03.984][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-12 21:02:03.985][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:03.986][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-12 21:02:03.987][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-12 21:02:03.988][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-12 21:02:03.989][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-12 21:02:03.990][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-06-12 21:02:03.997][biodb::testThat]
biodb.INFO [2024-06-12 21:02:03.998][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-06-12 21:02:03.999][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:03.999][biodb::testThat]
biodb.DEBUG[2024-06-12 21:02:04.002][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:04.003][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:04.004][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-12 21:02:04.006][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:04.007][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-12 21:02:04.008][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-12 21:02:04.009][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-12 21:02:04.010][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-12 21:02:04.011][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-06-12 21:02:04.019][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:04.020][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:04.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.021][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.022][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:04.023][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:04.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.025][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.026][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:04.027][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:04.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.029][ef$get] fields variable is a list.
biodb.INFO [2024-06-12 21:02:04.030][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-12 21:02:04.031][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-06-12 21:02:04.044][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-06-12 21:02:04.045][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-12 21:02:04.046][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.047][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.049][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-12 21:02:04.053][biodb::testContext]
biodb.INFO [2024-06-12 21:02:04.054][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-12 21:02:04.055][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-06-12 21:02:04.056][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-12 21:02:04.057][biodb::testContext]
biodb.INFO [2024-06-12 21:02:04.060][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-12 21:02:04.062][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-06-12 21:02:04.066][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-12 21:02:04.067][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-12 21:02:04.068][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-12 21:02:04.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.071][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-12 21:02:04.072][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-12 21:02:04.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.076][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-12 21:02:04.077][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-12 21:02:04.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.080][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-12 21:02:04.081][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-12 21:02:04.082][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-12 21:02:04.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.085][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-12 21:02:04.086][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-12 21:02:04.087][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-12 21:02:04.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.091][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-12 21:02:04.092][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-12 21:02:04.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.094][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[2024-06-12 21:02:04.095][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-12 21:02:04.096][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-12 21:02:04.097][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-12 21:02:04.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.100][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-12 21:02:04.101][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-12 21:02:04.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.105][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-12 21:02:04.106][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-12 21:02:04.107][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-12 21:02:04.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.110][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-12 21:02:04.111][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-12 21:02:04.112][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-12 21:02:04.113][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-12 21:02:04.114][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-12 21:02:04.115][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-12 21:02:04.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.118][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-12 21:02:04.119][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-12 21:02:04.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.123][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-12 21:02:04.124][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-12 21:02:04.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.127][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-12 21:02:04.128][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-12 21:02:04.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.132][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-12 21:02:04.133][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-12 21:02:04.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.136][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-12 21:02:04.137][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-12 21:02:04.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.146][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-12 21:02:04.147][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-12 21:02:04.151][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-12 21:02:04.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.153][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[2024-06-12 21:02:04.154][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-12 21:02:04.155][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-12 21:02:04.156][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-12 21:02:04.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.160][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-12 21:02:04.162][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.163][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-12 21:02:04.164][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.165][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:02:04.166][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.166][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.167][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.168][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.169][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-12 21:02:04.170][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:02:04.171][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.172][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-12 21:02:04.173][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:02:04.174][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.175][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.176][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-12 21:02:04.176][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-12 21:02:04.176][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-12 21:02:04.176][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-12 21:02:04.176][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-12 21:02:04.177][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:02:04.178][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:04.179][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:04.180][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:02:04.182][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:04.183][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:04.184][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.185][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.186][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:04.187][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:04.189][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.190][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.192][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-12 21:02:04.194][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.195][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-12 21:02:04.197][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.198][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:02:04.199][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.201][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.202][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.203][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.205][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-12 21:02:04.206][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:02:04.207][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.208][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-12 21:02:04.209][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:02:04.210][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.211][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.212][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-12 21:02:04.212][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-12 21:02:04.212][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-12 21:02:04.212][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-12 21:02:04.212][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-12 21:02:04.213][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:02:04.214][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:04.214][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:04.215][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:02:04.216][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:04.217][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:04.218][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.219][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.220][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:04.221][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:04.222][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.223][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.224][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-12 21:02:04.225][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.226][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-12 21:02:04.227][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.228][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:02:04.229][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.230][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.231][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.232][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.233][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-12 21:02:04.234][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:02:04.235][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.236][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-12 21:02:04.237][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:02:04.238][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.239][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.240][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.241][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:02:04.241][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:04.242][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:04.243][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:02:04.245][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:04.245][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:04.246][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.247][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.248][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:04.249][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:04.250][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.251][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.252][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-12 21:02:04.254][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.259][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-12 21:02:04.260][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.262][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:02:04.263][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.264][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.264][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.265][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.266][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-12 21:02:04.267][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:02:04.268][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.269][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-12 21:02:04.270][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:02:04.271][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.272][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.273][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.274][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:02:04.275][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:04.275][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:04.276][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:02:04.277][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:04.278][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:04.279][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.280][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.281][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:04.282][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:04.283][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.284][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.285][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-12 21:02:04.286][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.292][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.DEBUG[2024-06-12 21:02:04.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.335][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[2024-06-12 21:02:04.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.347][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[2024-06-12 21:02:04.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.364][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[2024-06-12 21:02:04.365][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-12 21:02:04.367][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-12 21:02:04.368][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-12 21:02:04.369][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-12 21:02:04.371][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-12 21:02:04.372][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-12 21:02:04.373][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-12 21:02:04.375][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-12 21:02:04.376][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-12 21:02:04.377][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-12 21:02:04.378][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-12 21:02:04.380][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-12 21:02:04.381][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-12 21:02:04.382][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-12 21:02:04.384][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-12 21:02:04.385][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-12 21:02:04.386][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-12 21:02:04.388][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-12 21:02:04.389][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-12 21:02:04.391][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-12 21:02:04.392][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-12 21:02:04.394][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-12 21:02:04.395][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-12 21:02:04.397][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-12 21:02:04.398][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-12 21:02:04.399][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-12 21:02:04.401][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-12 21:02:04.402][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-12 21:02:04.403][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-12 21:02:04.405][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-12 21:02:04.406][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-12 21:02:04.407][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-12 21:02:04.409][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-12 21:02:04.410][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-12 21:02:04.411][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-12 21:02:04.413][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-12 21:02:04.414][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-12 21:02:04.415][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-12 21:02:04.416][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-12 21:02:04.418][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-12 21:02:04.419][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-12 21:02:04.420][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-12 21:02:04.422][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-12 21:02:04.423][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-12 21:02:04.424][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-12 21:02:04.426][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-12 21:02:04.427][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-12 21:02:04.428][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-12 21:02:04.429][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-12 21:02:04.431][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-12 21:02:04.432][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-12 21:02:04.433][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-12 21:02:04.435][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-12 21:02:04.436][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-12 21:02:04.437][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-12 21:02:04.439][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-12 21:02:04.440][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-12 21:02:04.441][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-12 21:02:04.443][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-12 21:02:04.444][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-12 21:02:04.445][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-12 21:02:04.446][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-12 21:02:04.448][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-12 21:02:04.449][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-12 21:02:04.450][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-12 21:02:04.452][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-12 21:02:04.453][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-12 21:02:04.454][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-12 21:02:04.456][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-12 21:02:04.457][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-12 21:02:04.464][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-12 21:02:04.465][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-12 21:02:04.467][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-12 21:02:04.468][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-12 21:02:04.469][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-12 21:02:04.471][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-12 21:02:04.472][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-12 21:02:04.473][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-12 21:02:04.474][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-12 21:02:04.476][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-12 21:02:04.477][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-12 21:02:04.478][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-12 21:02:04.480][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-12 21:02:04.481][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-12 21:02:04.482][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-12 21:02:04.483][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-12 21:02:04.484][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.486][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.583][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[2024-06-12 21:02:04.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:04.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:04.596][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-06-12 21:02:04.598][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:02:04.599][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.600][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.601][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.602][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:02:04.604][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.605][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-06-12 21:02:04.606][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.607][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.608][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-12 21:02:04.609][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:02:04.610][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.611][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-06-12 21:02:04.612][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-06-12 21:02:04.613][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-06-12 21:02:04.615][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:04.616][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-12 21:02:04.616][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-06-12 21:02:04.616][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-06-12 21:02:04.617][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-12 21:02:04.618][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:04.618][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:04.619][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:02:04.620][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:04.621][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:04.622][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:02:04.623][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-12 21:02:04.623][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-06-12 21:02:04.624][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:04.625][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:04.626][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:04.627][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:04.628][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-06-12 21:02:04.629][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-12 21:02:04.631][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-12 21:02:04.632][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-12 21:02:04.634][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-12 21:02:04.637][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:02:04.638][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-06-12 21:02:04.639][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:02:04.640][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-12 21:02:04.641][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:02:04.642][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:02:04.644][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-06-12 21:02:04.645][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-06-12 21:02:04.646][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-12 21:02:04.646][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-06-12 21:02:04.647][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:04.647][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:04.648][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-06-12 21:02:04.649][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-06-12 21:02:04.650][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:02:04.652][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-12 21:02:04.653][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:02:04.654][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:02:04.655][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-12 21:02:04.656][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:02:04.657][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-06-12 21:02:04.659][biodb::testThat]
biodb.INFO [2024-06-12 21:02:04.659][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-06-12 21:02:04.660][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:04.661][biodb::testThat]
biodb.DEBUG[2024-06-12 21:02:04.665][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:04.666][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:04.668][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-12 21:02:04.674][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:04.675][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-12 21:02:04.677][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-12 21:02:04.678][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-12 21:02:04.679][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-12 21:02:04.680][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-12 21:02:04.683][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-06-12 21:02:04.687][biodb::testThat]
biodb.INFO [2024-06-12 21:02:04.688][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-06-12 21:02:04.689][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:04.690][biodb::testThat]
biodb.DEBUG[2024-06-12 21:02:04.692][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-06-12 21:02:04.693][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-12 21:02:04.694][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:04.696][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-12 21:02:04.698][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-06-12 21:02:04.699][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-12 21:02:04.701][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-06-12 21:02:04.702][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-12 21:02:04.703][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-12 21:02:04.704][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-12 21:02:04.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:04.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:04.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:04.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:04.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:04.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:04.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-12 21:02:04.718][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:04.719][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:04.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.721][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:04.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:04.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.726][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:04.727][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:04.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.729][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.730][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:04.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:04.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.734][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:04.735][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:04.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.737][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.738][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:04.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:04.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.742][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:04.743][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:04.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.745][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.746][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:04.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:04.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.750][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:04.751][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:04.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.753][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:04.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:04.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.758][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:04.759][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:04.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.761][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:04.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:04.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.766][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:04.767][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:04.768][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.769][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.770][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:04.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:04.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.774][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:04.775][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:04.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.777][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.778][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:04.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:04.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.787][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:04.788][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:04.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.790][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.791][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:04.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:04.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.795][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:04.796][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:04.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.798][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.799][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:04.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:04.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.803][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:04.804][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:04.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.805][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:04.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:04.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.812][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:04.813][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:04.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:04.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:04.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.820][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:04.821][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:04.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.823][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.824][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:04.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:04.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.829][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:04.830][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:04.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.831][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:04.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:04.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.837][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:04.838][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:04.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.839][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.841][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:04.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:04.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.844][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:04.845][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:04.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.847][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.848][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:04.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:04.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.852][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:04.853][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:04.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.855][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.856][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:04.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:04.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.860][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-12 21:02:04.861][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:04.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.863][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.864][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-12 21:02:04.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:04.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:04.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:04.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:04.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:04.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:04.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:04.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.880][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:04.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:04.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.884][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:04.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:04.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.892][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:04.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:04.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.896][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:04.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:04.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.900][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:04.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:04.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.903][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:04.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:04.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:04.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:04.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:04.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:04.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:04.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:04.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:04.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:04.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:04.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:04.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:04.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:04.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.930][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:04.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:04.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.934][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:04.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:04.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:04.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:04.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.941][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:04.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:04.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.945][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:04.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:04.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.949][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:04.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:04.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.952][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:04.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:04.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.956][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:04.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:04.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.960][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:04.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:04.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.964][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:04.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:04.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.967][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:04.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:04.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.971][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:04.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:04.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:04.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:04.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.979][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:04.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:04.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:04.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:04.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.990][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:04.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:04.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:04.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:04.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:04.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:04.998][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:04.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:05.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.013][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:05.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:05.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.017][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:05.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:05.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.021][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:05.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:05.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:05.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:05.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:05.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:05.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:05.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:05.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.036][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:05.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:05.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:05.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:05.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:05.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:05.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.047][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:05.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:05.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.051][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:05.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:05.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.055][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:05.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:05.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.059][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:05.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:05.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.062][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:05.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:05.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.066][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:05.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:05.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.070][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:05.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:05.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.074][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:05.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:05.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.078][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:05.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:05.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.081][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-12 21:02:05.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.103][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-12 21:02:05.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:05.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:05.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:05.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.112][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:05.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:05.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.116][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:05.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:05.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.120][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:05.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:05.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:05.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:05.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.127][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:05.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:05.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.131][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:05.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:05.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.139][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:05.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:05.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:05.165][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-06-12 21:02:05.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-12 21:02:05.189][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-12 21:02:05.191][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-06-12 21:02:05.193][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-06-12 21:02:05.194][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-12 21:02:05.195][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.197][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.199][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-06-12 21:02:05.221][biodb::testContext]
biodb.INFO [2024-06-12 21:02:05.223][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-12 21:02:05.224][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-06-12 21:02:05.225][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-12 21:02:05.226][biodb::testContext]
biodb.INFO [2024-06-12 21:02:05.230][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-06-12 21:02:05.232][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-06-12 21:02:05.236][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-12 21:02:05.237][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-12 21:02:05.238][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-12 21:02:05.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.242][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-12 21:02:05.243][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-12 21:02:05.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.247][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-12 21:02:05.248][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-12 21:02:05.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.252][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-12 21:02:05.253][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-12 21:02:05.254][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-12 21:02:05.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.257][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-12 21:02:05.258][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-12 21:02:05.259][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-12 21:02:05.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.263][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-12 21:02:05.264][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-12 21:02:05.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.268][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-12 21:02:05.269][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-12 21:02:05.270][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-12 21:02:05.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.274][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-12 21:02:05.275][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-12 21:02:05.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.278][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-12 21:02:05.279][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-12 21:02:05.280][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-12 21:02:05.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.284][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-12 21:02:05.285][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-12 21:02:05.286][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-12 21:02:05.287][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-12 21:02:05.288][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-12 21:02:05.289][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-12 21:02:05.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.293][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-12 21:02:05.294][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-12 21:02:05.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.297][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-12 21:02:05.299][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-12 21:02:05.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.302][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-12 21:02:05.303][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-12 21:02:05.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.307][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-12 21:02:05.308][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-12 21:02:05.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.311][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-12 21:02:05.312][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-12 21:02:05.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.316][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-12 21:02:05.317][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-12 21:02:05.320][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-12 21:02:05.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.323][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-12 21:02:05.324][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-12 21:02:05.325][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-12 21:02:05.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.334][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-12 21:02:05.336][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.337][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-12 21:02:05.338][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.339][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:02:05.340][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.341][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.342][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.343][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.344][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-12 21:02:05.345][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:02:05.345][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.346][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-12 21:02:05.347][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:02:05.348][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.349][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.350][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-12 21:02:05.350][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-12 21:02:05.350][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-12 21:02:05.350][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-12 21:02:05.350][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-12 21:02:05.351][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:02:05.352][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:05.353][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:05.354][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:02:05.355][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:05.356][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:05.356][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.357][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.358][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:05.359][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:05.360][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.361][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.362][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-12 21:02:05.364][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.365][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-12 21:02:05.366][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.367][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:02:05.368][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.369][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.370][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.371][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.372][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-12 21:02:05.373][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:02:05.374][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.375][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-12 21:02:05.376][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:02:05.377][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.378][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.379][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-12 21:02:05.379][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-12 21:02:05.379][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-12 21:02:05.379][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-12 21:02:05.379][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-12 21:02:05.380][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:02:05.381][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:05.382][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:05.383][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:02:05.383][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:05.384][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:05.385][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.386][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.387][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:05.388][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:05.389][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.390][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.391][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-12 21:02:05.393][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.394][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-12 21:02:05.395][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.396][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:02:05.397][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.398][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.399][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.400][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.401][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-12 21:02:05.401][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:02:05.402][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.403][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-12 21:02:05.404][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:02:05.405][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.406][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.407][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.408][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:02:05.409][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:05.410][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:05.411][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:02:05.412][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:05.413][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:05.414][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.415][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.416][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:05.416][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:05.417][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.418][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.419][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-12 21:02:05.421][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.422][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-12 21:02:05.423][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.424][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:02:05.425][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.426][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.427][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.428][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.429][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-12 21:02:05.436][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:02:05.437][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.438][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-12 21:02:05.439][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:02:05.440][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.441][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.442][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.443][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-12 21:02:05.444][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:05.445][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:05.446][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:02:05.447][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:05.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:05.448][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.449][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.450][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:05.451][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:05.452][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.453][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.454][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-12 21:02:05.455][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.503][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[2024-06-12 21:02:05.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.529][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-12 21:02:05.535][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-12 21:02:05.537][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-12 21:02:05.538][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-12 21:02:05.540][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-12 21:02:05.541][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-12 21:02:05.542][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-12 21:02:05.543][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-12 21:02:05.545][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-12 21:02:05.546][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-12 21:02:05.547][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-12 21:02:05.549][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-12 21:02:05.550][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-12 21:02:05.551][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-12 21:02:05.553][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-12 21:02:05.554][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-12 21:02:05.555][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-12 21:02:05.557][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-12 21:02:05.558][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-12 21:02:05.559][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-12 21:02:05.561][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-12 21:02:05.562][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-12 21:02:05.563][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-12 21:02:05.565][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-12 21:02:05.566][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-12 21:02:05.567][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-12 21:02:05.569][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-12 21:02:05.570][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-12 21:02:05.571][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-12 21:02:05.573][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-12 21:02:05.574][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-12 21:02:05.575][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-12 21:02:05.577][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-12 21:02:05.578][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-12 21:02:05.579][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-12 21:02:05.581][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-12 21:02:05.582][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-12 21:02:05.583][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-12 21:02:05.585][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-12 21:02:05.586][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-12 21:02:05.587][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-12 21:02:05.589][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-12 21:02:05.590][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-12 21:02:05.591][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-12 21:02:05.593][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-12 21:02:05.594][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-12 21:02:05.595][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-12 21:02:05.596][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-12 21:02:05.598][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-12 21:02:05.599][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-12 21:02:05.600][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-12 21:02:05.602][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-12 21:02:05.603][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-12 21:02:05.604][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-12 21:02:05.606][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-12 21:02:05.607][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-12 21:02:05.608][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-12 21:02:05.610][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-12 21:02:05.611][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-12 21:02:05.612][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-12 21:02:05.614][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-12 21:02:05.615][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-12 21:02:05.616][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-12 21:02:05.617][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-12 21:02:05.619][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-12 21:02:05.620][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-12 21:02:05.621][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-12 21:02:05.623][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-12 21:02:05.624][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-12 21:02:05.625][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-12 21:02:05.632][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-12 21:02:05.634][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-12 21:02:05.636][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-12 21:02:05.638][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-12 21:02:05.639][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-12 21:02:05.640][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-12 21:02:05.642][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-12 21:02:05.644][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-12 21:02:05.646][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-12 21:02:05.648][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-12 21:02:05.650][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-12 21:02:05.652][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-12 21:02:05.654][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-12 21:02:05.657][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-12 21:02:05.659][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-06-12 21:02:05.660][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-12 21:02:05.662][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.664][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.696][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[2024-06-12 21:02:05.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.720][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[2024-06-12 21:02:05.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-12 21:02:05.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:05.777][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-06-12 21:02:05.778][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:02:05.780][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.781][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.782][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.783][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-12 21:02:05.784][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.785][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-06-12 21:02:05.786][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.787][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.788][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-12 21:02:05.789][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-12 21:02:05.790][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.791][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-06-12 21:02:05.792][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-06-12 21:02:05.793][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-06-12 21:02:05.794][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-12 21:02:05.795][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-12 21:02:05.795][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-06-12 21:02:05.795][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-06-12 21:02:05.796][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-12 21:02:05.797][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:05.798][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:05.799][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-12 21:02:05.799][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-12 21:02:05.800][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-12 21:02:05.801][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-12 21:02:05.802][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-12 21:02:05.802][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-06-12 21:02:05.803][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:05.804][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:05.805][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-12 21:02:05.806][self$setPropertyValue]
biodb.DEBUG[2024-06-12 21:02:05.807][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-06-12 21:02:05.809][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-12 21:02:05.810][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-12 21:02:05.812][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-12 21:02:05.813][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-12 21:02:05.817][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:02:05.817][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-06-12 21:02:05.819][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:02:05.820][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-12 21:02:05.821][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:02:05.822][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:02:05.824][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-06-12 21:02:05.825][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-06-12 21:02:05.826][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-06-12 21:02:05.826][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-06-12 21:02:05.827][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-12 21:02:05.828][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-12 21:02:05.828][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-06-12 21:02:05.829][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-06-12 21:02:05.830][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-06-12 21:02:05.832][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-12 21:02:05.833][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:02:05.834][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:02:05.835][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-06-12 21:02:05.836][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-12 21:02:05.837][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-06-12 21:02:05.839][biodb::testThat]
biodb.INFO [2024-06-12 21:02:05.844][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-06-12 21:02:05.846][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-12 21:02:05.847][biodb::testThat]
biodb.DEBUG[2024-06-12 21:02:05.849][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-12 21:02:05.850][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-06-12 21:02:05.851][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-06-12 21:02:05.853][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:05.855][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:05.856][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-12 21:02:05.857][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:05.858][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-12 21:02:05.860][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-12 21:02:05.861][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-12 21:02:05.861][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-12 21:02:05.862][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-12 21:02:05.863][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-12 21:02:05.864][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-06-12 21:02:05.866][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-06-12 21:02:05.867][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-12 21:02:05.868][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:05.870][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-12 21:02:05.872][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-06-12 21:02:05.873][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-12 21:02:05.874][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-06-12 21:02:05.876][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-12 21:02:05.877][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-12 21:02:05.878][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-12 21:02:05.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:05.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:05.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:05.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:05.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:05.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:05.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-12 21:02:05.892][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.894][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.896][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:05.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:05.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.905][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:05.906][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:05.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.910][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.912][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:05.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:05.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.920][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:05.921][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:05.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.924][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.926][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:05.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:05.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.932][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:05.933][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:05.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.935][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.937][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:05.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:05.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.942][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:05.944][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:05.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.946][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:05.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:05.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.953][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:05.954][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:05.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.957][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:05.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:05.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.963][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:05.964][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:05.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.966][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.968][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:05.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:05.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.977][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:05.978][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:05.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.980][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.981][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:05.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:05.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.985][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:05.986][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:05.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.988][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.989][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:05.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:05.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.993][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:05.994][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:05.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:05.996][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:05.997][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:05.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:05.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.001][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:06.002][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:06.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.004][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.005][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:06.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:06.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.009][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:06.010][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:06.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.012][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:06.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:06.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.017][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.018][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.025][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.026][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.027][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.033][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.034][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.036][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.041][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.042][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.043][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.045][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.049][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:06.050][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:06.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.051][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.053][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:06.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:06.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.057][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-12 21:02:06.058][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.059][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.061][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-12 21:02:06.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.081][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.085][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.089][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.093][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.096][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.100][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.127][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.130][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.134][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.138][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.142][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.145][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.149][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.153][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.157][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.161][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.168][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.183][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:06.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:06.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.187][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:06.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:06.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.191][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:06.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:06.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:06.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:06.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:06.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:06.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.202][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:06.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:06.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.210][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.214][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.217][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.221][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.225][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.240][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.251][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.255][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.259][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.263][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.266][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.270][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.274][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:06.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:06.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:06.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:06.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.287][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:06.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:06.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.291][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-12 21:02:06.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.306][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-12 21:02:06.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.329][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.333][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.340][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:06.366][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-06-12 21:02:06.367][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.371][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.375][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.379][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:06.388][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-12 21:02:06.389][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-12 21:02:06.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:06.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:06.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:06.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:06.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:06.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:06.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:06.400][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-06-12 21:02:06.401][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-06-12 21:02:06.402][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:06.404][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-06-12 21:02:06.406][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-06-12 21:02:06.407][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-12 21:02:06.408][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-06-12 21:02:06.409][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-06-12 21:02:06.432][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-06-12 21:02:06.434][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-06-12 21:02:06.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:06.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:06.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:06.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:06.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:06.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:06.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-12 21:02:06.447][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.448][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.450][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.455][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.456][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.458][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.459][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.463][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.464][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.466][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.467][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.471][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.472][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.474][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.475][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.480][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.495][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.497][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.499][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.504][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.505][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.507][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.509][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.513][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.514][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.516][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.518][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.522][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.523][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.525][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.526][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.530][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.531][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.533][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.534][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.538][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:06.539][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:06.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.541][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.542][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:06.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:06.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.546][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:06.547][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:06.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.549][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.550][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:06.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:06.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.554][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.555][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.557][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.563][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.564][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.565][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.571][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.572][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.573][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.575][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.578][ef$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.579][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.581][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.582][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.586][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:06.587][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:06.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.589][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.591][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:06.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:06.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.600][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-06-12 21:02:06.601][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.603][ef$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.605][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-06-12 21:02:06.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.620][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.624][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.628][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-12 21:02:06.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.632][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.636][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.639][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-12 21:02:06.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-12 21:02:06.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-06-12 21:02:06.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.666][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.673][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-06-12 21:02:06.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.677][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.681][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.684][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-06-12 21:02:06.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.688][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.692][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.696][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-06-12 21:02:06.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.704][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.709][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.712][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.716][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:06.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:06.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:06.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:06.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.723][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-12 21:02:06.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-12 21:02:06.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:06.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:06.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.731][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:06.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:06.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-12 21:02:06.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-12 21:02:06.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.739][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.750][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.754][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.757][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-12 21:02:06.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-12 21:02:06.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.780][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.784][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.787][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.791][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-06-12 21:02:06.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.795][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.804][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.808][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-06-12 21:02:06.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.813][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:06.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:06.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.816][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:06.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:06.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.820][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-12 21:02:06.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-12 21:02:06.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.824][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-12 21:02:06.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.835][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.839][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-06-12 21:02:06.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-12 21:02:06.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.843][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.851][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.855][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.858][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-12 21:02:06.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-12 21:02:06.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.862][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.866][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.874][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-06-12 21:02:06.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-12 21:02:06.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-12 21:02:06.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:06.908][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-06-12 21:02:06.927][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.934][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.940][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:06.944][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:06.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:06.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:06.948][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-12 21:02:06.949][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-06-12 21:02:06.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:06.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:06.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:06.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:06.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:06.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:06.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:06.979][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-12 21:02:06.981][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-06-12 21:02:06.982][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-06-12 21:02:06.984][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:06.985][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:06.987][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-12 21:02:06.988][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:06.989][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-12 21:02:06.990][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-12 21:02:06.992][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-12 21:02:06.993][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-12 21:02:06.994][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-12 21:02:06.995][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-12 21:02:06.996][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-12 21:02:06.998][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:06.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.002][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.006][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.010][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.014][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.018][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.021][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:07.025][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-12 21:02:07.026][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-12 21:02:07.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:07.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:07.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:07.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:07.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:07.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:07.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-12 21:02:07.045][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.050][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.054][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.058][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.061][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.065][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.069][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:07.073][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-06-12 21:02:07.074][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-12 21:02:07.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:07.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:07.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:07.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:07.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:07.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:07.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-12 21:02:07.088][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-06-12 21:02:07.089][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-06-12 21:02:07.090][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-06-12 21:02:07.092][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:07.093][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:07.095][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-06-12 21:02:07.096][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-06-12 21:02:07.097][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-06-12 21:02:07.098][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-06-12 21:02:07.099][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-06-12 21:02:07.100][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-06-12 21:02:07.101][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-06-12 21:02:07.102][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-06-12 21:02:07.103][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-06-12 21:02:07.105][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.109][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.113][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.116][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.120][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.124][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.128][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:07.132][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-06-12 21:02:07.133][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-06-12 21:02:07.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:07.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:07.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:07.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:07.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:07.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:07.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-12 21:02:07.148][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.153][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.157][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.161][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.164][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.168][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-12 21:02:07.172][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-06-12 21:02:07.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-06-12 21:02:07.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-12 21:02:07.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-12 21:02:07.176][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-06-12 21:02:07.177][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-06-12 21:02:07.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-12 21:02:07.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:07.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:07.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:07.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:07.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:07.187][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.INFO [2024-06-12 21:02:07.193][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-12 21:02:07.194][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-06-12 21:02:07.195][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-06-12 21:02:07.196][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-12 21:02:07.197][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-12 21:02:07.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-12 21:02:07.199][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-12 21:02:07.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-12 21:02:07.200][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-12 21:02:07.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
9.055 0.498 10.582