Pierrick Roger
| Snapshot Date: 2024-07-21 14:00 -0400 (Sun, 21 Jul 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 2024-07-24 09:03 -0400 (Wed, 24 Jul 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4747 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4489 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4518 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4467 |
| 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 | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | ERROR | OK | |||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | ERROR | OK | |||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | 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: 2024-07-21 22:08:29 -0400 (Sun, 21 Jul 2024) |
| EndedAt: 2024-07-21 22:09:19 -0400 (Sun, 21 Jul 2024) |
| EllapsedTime: 50.1 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
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###
### 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
###
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.1 (2024-06-14)
* 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
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###
### 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 4.4.1 (2024-06-14) -- "Race for Your Life"
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 [2024-07-21 22:09:02.808][biodb::testContext]
biodb.INFO [2024-07-21 22:09:02.811][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-21 22:09:02.812][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-07-21 22:09:02.813][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-21 22:09:02.814][biodb::testContext]
biodb.INFO [2024-07-21 22:09:02.815][biodb::testThat]
biodb.INFO [2024-07-21 22:09:02.816][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-07-21 22:09:02.817][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:02.818][biodb::testThat]
biodb.INFO [2024-07-21 22:09:02.921][biodb::testContext]
biodb.INFO [2024-07-21 22:09:02.922][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-21 22:09:02.924][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-07-21 22:09:02.925][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-21 22:09:02.925][biodb::testContext]
biodb.INFO [2024-07-21 22:09:02.935][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-07-21 22:09:02.951][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-07-21 22:09:02.959][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-21 22:09:02.961][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-21 22:09:02.962][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-21 22:09:02.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:02.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:02.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:02.966][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-21 22:09:02.987][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-21 22:09:02.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:02.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:02.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:02.991][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-21 22:09:02.992][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-21 22:09:02.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:02.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:02.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:02.996][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-21 22:09:02.997][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-21 22:09:02.998][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-21 22:09:02.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.002][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-21 22:09:03.003][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-21 22:09:03.004][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-21 22:09:03.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.008][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-21 22:09:03.009][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-21 22:09:03.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.013][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-21 22:09:03.014][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-21 22:09:03.015][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-21 22:09:03.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.018][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-21 22:09:03.020][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-21 22:09:03.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.023][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-21 22:09:03.024][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-21 22:09:03.025][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-21 22:09:03.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.029][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-21 22:09:03.030][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-21 22:09:03.031][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-21 22:09:03.032][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-21 22:09:03.033][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-21 22:09:03.034][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-21 22:09:03.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.038][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-21 22:09:03.039][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-21 22:09:03.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.043][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-21 22:09:03.044][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-21 22:09:03.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.047][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-21 22:09:03.048][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-21 22:09:03.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.052][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-21 22:09:03.053][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-21 22:09:03.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.057][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-21 22:09:03.058][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-21 22:09:03.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.061][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-21 22:09:03.062][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-21 22:09:03.066][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-21 22:09:03.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.069][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-21 22:09:03.070][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-21 22:09:03.071][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-21 22:09:03.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.078][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-21 22:09:03.113][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.129][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-21 22:09:03.130][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.131][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:03.138][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.140][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.141][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.142][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.143][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-21 22:09:03.144][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:03.145][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.146][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-21 22:09:03.147][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:03.148][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.149][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.150][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-21 22:09:03.150][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-21 22:09:03.150][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-21 22:09:03.150][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-21 22:09:03.150][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-21 22:09:03.151][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:03.152][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:03.153][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:03.154][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:03.154][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:03.155][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:03.156][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.157][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.158][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:03.159][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:03.160][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.161][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.162][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-21 22:09:03.164][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.165][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-21 22:09:03.166][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.167][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:03.168][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.169][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.170][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.170][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.171][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-21 22:09:03.172][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:03.173][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.174][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-21 22:09:03.175][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:03.176][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.177][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.178][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-21 22:09:03.178][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-21 22:09:03.178][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-21 22:09:03.178][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-21 22:09:03.178][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-21 22:09:03.179][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:03.180][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:03.181][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:03.182][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:03.183][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:03.184][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:03.185][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.185][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.186][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:03.187][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:03.188][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.189][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.190][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-21 22:09:03.192][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.193][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-21 22:09:03.194][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.195][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:03.196][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.197][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.198][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.198][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.199][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-21 22:09:03.200][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:03.201][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.202][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-21 22:09:03.203][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:03.204][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.205][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.206][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.207][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:03.208][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:03.209][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:03.210][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:03.210][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:03.211][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:03.212][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.213][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.214][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:03.215][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:03.216][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.217][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.218][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-21 22:09:03.219][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.220][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-21 22:09:03.221][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.222][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:03.223][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.224][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.225][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.226][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.227][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-21 22:09:03.228][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:03.229][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.230][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-21 22:09:03.231][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:03.231][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.232][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.233][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.234][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:03.235][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:03.236][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:03.237][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:03.238][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:03.239][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:03.240][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.240][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.241][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:03.242][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:03.243][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.244][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.248][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-21 22:09:03.249][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.267][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[2024-07-21 22:09:03.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.301][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[2024-07-21 22:09:03.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.310][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[2024-07-21 22:09:03.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.314][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[2024-07-21 22:09:03.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.318][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[2024-07-21 22:09:03.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.328][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-21 22:09:03.332][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-21 22:09:03.334][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-21 22:09:03.335][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-21 22:09:03.336][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-21 22:09:03.338][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-21 22:09:03.339][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-21 22:09:03.340][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-21 22:09:03.342][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-21 22:09:03.343][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-21 22:09:03.344][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-21 22:09:03.345][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-21 22:09:03.347][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-21 22:09:03.348][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-21 22:09:03.349][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-21 22:09:03.351][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-21 22:09:03.352][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-21 22:09:03.353][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-21 22:09:03.355][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-21 22:09:03.356][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-21 22:09:03.357][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-21 22:09:03.358][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-21 22:09:03.360][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-21 22:09:03.361][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-21 22:09:03.362][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-21 22:09:03.364][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-21 22:09:03.365][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-21 22:09:03.366][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-21 22:09:03.368][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-21 22:09:03.369][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-21 22:09:03.370][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-21 22:09:03.371][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-21 22:09:03.373][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-21 22:09:03.374][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-21 22:09:03.375][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-21 22:09:03.377][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-21 22:09:03.378][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-21 22:09:03.379][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-21 22:09:03.380][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-21 22:09:03.382][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-21 22:09:03.383][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-21 22:09:03.384][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-21 22:09:03.386][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-21 22:09:03.387][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-21 22:09:03.388][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-21 22:09:03.389][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-21 22:09:03.391][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-21 22:09:03.392][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-21 22:09:03.393][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-21 22:09:03.395][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-21 22:09:03.396][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-21 22:09:03.397][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-21 22:09:03.398][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-21 22:09:03.400][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-21 22:09:03.401][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-21 22:09:03.402][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-21 22:09:03.404][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-21 22:09:03.405][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-21 22:09:03.406][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-21 22:09:03.407][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-21 22:09:03.409][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-21 22:09:03.410][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-21 22:09:03.411][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-21 22:09:03.413][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-21 22:09:03.414][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-21 22:09:03.415][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-21 22:09:03.416][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-21 22:09:03.418][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-21 22:09:03.419][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-21 22:09:03.420][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-21 22:09:03.422][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-21 22:09:03.423][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-21 22:09:03.424][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-21 22:09:03.425][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-21 22:09:03.427][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-21 22:09:03.428][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-21 22:09:03.429][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-21 22:09:03.430][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-21 22:09:03.432][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-21 22:09:03.433][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-21 22:09:03.434][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-21 22:09:03.436][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-21 22:09:03.437][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-21 22:09:03.442][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-21 22:09:03.444][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-07-21 22:09:03.447][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-21 22:09:03.448][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.450][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.503][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[2024-07-21 22:09:03.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.520][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[2024-07-21 22:09:03.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:03.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:03.563][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-21 22:09:03.573][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:03.575][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.576][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.577][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.578][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:03.579][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.580][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-21 22:09:03.580][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.581][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.582][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-21 22:09:03.583][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:03.584][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.585][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-21 22:09:03.586][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-21 22:09:03.587][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-21 22:09:03.588][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:03.589][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-21 22:09:03.589][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-21 22:09:03.589][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-21 22:09:03.590][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-21 22:09:03.591][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:03.592][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:03.593][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:03.594][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:03.595][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:03.596][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:03.596][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-21 22:09:03.596][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-21 22:09:03.597][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:03.598][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:03.599][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:03.600][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:03.606][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-21 22:09:03.607][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-21 22:09:03.609][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-21 22:09:03.611][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-21 22:09:03.612][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-21 22:09:03.635][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:03.636][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-21 22:09:03.640][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:03.678][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-21 22:09:03.682][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:03.683][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:03.685][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-21 22:09:03.686][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-21 22:09:03.687][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-21 22:09:03.687][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-21 22:09:03.688][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:03.688][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:03.689][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-21 22:09:03.690][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-21 22:09:03.691][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:03.707][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-21 22:09:03.708][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:03.709][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:03.711][private$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[2024-07-21 22:09:03.712][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:03.713][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-21 22:09:03.721][biodb::testThat]
biodb.INFO [2024-07-21 22:09:03.722][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-07-21 22:09:03.723][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:03.724][biodb::testThat]
biodb.TRACE[2024-07-21 22:09:03.728][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[2024-07-21 22:09:03.730][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-21 22:09:03.733][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-21 22:09:03.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:03.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:03.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:03.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:03.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:03.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:03.751][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.TRACE[2024-07-21 22:09:03.763][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:03.764][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:03.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.766][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:03.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:03.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.783][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:03.784][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:03.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.787][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.816][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:03.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:03.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.821][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:03.822][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:03.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.823][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.825][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:03.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:03.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.829][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:03.830][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:03.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.833][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:03.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:03.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.844][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:03.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:03.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.847][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:03.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:03.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.852][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:03.853][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:03.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.855][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:03.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:03.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.860][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:03.861][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:03.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.863][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.864][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:03.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:03.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.868][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:03.869][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:03.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.871][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.872][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:03.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:03.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.876][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:03.877][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:03.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.879][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.881][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:03.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:03.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.885][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:03.886][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:03.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.888][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.889][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:03.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:03.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.893][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:03.894][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:03.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.896][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.897][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:03.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:03.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.901][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:03.902][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:03.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.904][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:03.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:03.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.909][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:03.910][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:03.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.912][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:03.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:03.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.917][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:03.918][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:03.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.920][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:03.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:03.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.925][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:03.926][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:03.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.928][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:03.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:03.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.933][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:03.934][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:03.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.936][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.937][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:03.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:03.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.941][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:03.942][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:03.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.943][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.945][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:03.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:03.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.949][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-21 22:09:03.950][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:03.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.951][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.953][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-21 22:09:03.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:03.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:03.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:03.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:03.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:03.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:03.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:03.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:03.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:03.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.003][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.007][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.011][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.015][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.019][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.022][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.048][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.052][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.056][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.060][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.063][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.067][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.071][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.074][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.078][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.082][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:04.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:04.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.086][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:04.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:04.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.089][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:04.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:04.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.093][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:04.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:04.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.097][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:04.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:04.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.100][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:04.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:04.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:04.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:04.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:04.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:04.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:04.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:04.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.130][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.134][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.138][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.157][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.164][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.168][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.172][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.175][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.179][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.183][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.186][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:04.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:04.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.190][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:04.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:04.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.194][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:04.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:04.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.198][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-21 22:09:04.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.213][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-21 22:09:04.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.237][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.257][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.261][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.268][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:04.294][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-21 22:09:04.297][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-21 22:09:04.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-21 22:09:04.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.300][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-21 22:09:04.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-21 22:09:04.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.304][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-21 22:09:04.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-21 22:09:04.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.308][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-21 22:09:04.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-21 22:09:04.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.335][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.370][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.374][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.378][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:04.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.406][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.407][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.409][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.421][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.425][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.428][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.432][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.433][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.435][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.436][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:04.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.459][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.460][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.462][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.473][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.477][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.481][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.485][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.486][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.488][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.511][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.512][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.514][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.527][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.536][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.539][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.543][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.544][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.546][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.547][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.562][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.570][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.571][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.572][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.584][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:04.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:04.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.588][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:04.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:04.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.592][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:04.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:04.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.595][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:04.596][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:04.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.598][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.599][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:04.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:04.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.610][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:04.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:04.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.614][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:04.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:04.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.618][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:04.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:04.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.622][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:04.623][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:04.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.625][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.626][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:04.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:04.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.637][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.641][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.644][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.648][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.649][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.651][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.652][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.679][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.680][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.681][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.693][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.697][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.701][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.705][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.706][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.707][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.708][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.719][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.723][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.727][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.731][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.732][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.734][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.735][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.746][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.750][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.754][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.758][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.759][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.761][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.762][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.773][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:04.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:04.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.777][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:04.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:04.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.780][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:04.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:04.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.784][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:04.785][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:04.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.787][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.788][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:04.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:04.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:04.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:04.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:04.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:04.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:04.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:04.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.817][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:04.818][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:04.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.820][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:04.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:04.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.841][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.845][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.846][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.848][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.860][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.865][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.868][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.872][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.873][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.875][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.876][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.887][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:04.888][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:04.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.890][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.894][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.895][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:04.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.897][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.901][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.902][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:04.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.904][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:04.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.911][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.915][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.916][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:04.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.918][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.922][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.923][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:04.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.925][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.929][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.930][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:04.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.932][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.936][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.937][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:04.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.939][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.943][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:04.944][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:04.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.946][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.955][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:04.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:04.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.958][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.962][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:04.963][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:04.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.964][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.969][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.970][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:04.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.971][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.975][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.977][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:04.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.978][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.982][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.984][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:04.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.985][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.990][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:04.991][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:04.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.993][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:04.997][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.998][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:04.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:04.999][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.003][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.005][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.006][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.010][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:05.011][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:05.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.013][ef$get] fields variable is a list.
biodb.INFO [2024-07-21 22:09:05.020][biodb::testThat]
biodb.INFO [2024-07-21 22:09:05.021][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-07-21 22:09:05.021][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:05.022][biodb::testThat]
biodb.DEBUG[2024-07-21 22:09:05.035][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-07-21 22:09:05.043][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-21 22:09:05.048][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.049][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-21 22:09:05.051][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-07-21 22:09:05.052][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-21 22:09:05.054][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-07-21 22:09:05.055][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-21 22:09:05.078][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-21 22:09:05.079][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-21 22:09:05.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:05.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:05.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:05.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:05.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:05.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:05.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-21 22:09:05.098][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.099][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.101][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.106][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.107][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.109][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.110][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.114][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:05.115][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:05.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.117][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.118][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:05.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:05.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.122][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:05.123][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:05.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.125][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.126][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:05.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:05.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.130][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:05.131][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:05.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.133][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:05.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:05.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.138][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:05.139][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:05.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.141][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:05.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:05.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.146][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:05.147][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:05.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.148][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.150][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:05.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:05.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.154][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:05.155][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:05.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.156][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.158][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:05.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:05.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.162][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:05.163][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:05.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.164][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.166][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:05.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:05.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.170][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:05.171][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:05.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.172][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.174][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:05.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:05.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.178][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:05.178][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:05.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.180][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.181][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:05.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:05.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.185][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:05.186][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:05.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.188][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:05.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:05.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.193][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.194][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.201][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:05.202][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:05.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.204][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:05.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:05.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.209][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.210][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.212][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.221][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.222][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.224][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.225][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.228][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:05.229][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:05.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.231][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.233][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:05.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:05.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.236][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-21 22:09:05.237][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:05.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.239][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.240][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-21 22:09:05.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:05.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.256][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:05.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:05.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.259][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:05.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:05.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.263][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:05.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:05.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.267][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:05.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:05.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.271][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:05.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:05.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.274][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:05.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:05.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:05.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:05.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:05.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:05.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:05.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:05.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:05.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:05.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:05.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:05.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:05.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:05.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.301][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:05.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:05.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.305][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:05.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:05.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.308][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:05.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:05.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.312][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:05.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:05.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.316][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:05.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:05.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.320][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:05.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:05.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.324][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:05.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:05.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.327][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:05.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:05.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.331][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:05.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:05.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.335][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.339][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.342][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.351][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:05.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:05.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.355][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:05.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:05.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.359][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:05.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:05.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.362][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:05.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:05.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.366][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:05.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:05.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.370][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:05.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:05.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.385][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:05.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:05.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.389][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:05.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:05.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.393][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:05.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:05.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:05.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:05.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:05.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:05.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:05.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:05.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.408][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.412][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.416][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.419][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:05.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:05.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.423][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:05.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:05.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.427][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:05.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:05.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.431][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.434][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.438][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.442][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:05.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:05.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.446][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:05.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:05.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.450][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:05.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:05.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.453][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-21 22:09:05.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.457][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.461][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.468][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-21 22:09:05.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:05.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.492][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.496][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:05.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:05.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.499][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:05.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:05.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.507][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:05.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:05.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:05.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:05.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.533][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-21 22:09:05.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-21 22:09:05.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-21 22:09:05.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-21 22:09:05.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-21 22:09:05.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-21 22:09:05.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-21 22:09:05.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-21 22:09:05.551][biodb::testThat]
biodb.INFO [2024-07-21 22:09:05.552][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-07-21 22:09:05.553][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:05.554][biodb::testThat]
biodb.TRACE[2024-07-21 22:09:05.557][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.558][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.560][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.561][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-07-21 22:09:05.584][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.592][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.598][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-07-21 22:09:05.600][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-07-21 22:09:05.601][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-21 22:09:05.601][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-21 22:09:05.603][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.609][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.610][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-21 22:09:05.612][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.613][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-21 22:09:05.614][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-21 22:09:05.615][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-21 22:09:05.616][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-21 22:09:05.617][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-21 22:09:05.618][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-21 22:09:05.619][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-21 22:09:05.621][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.636][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-21 22:09:05.636][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-21 22:09:05.637][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-07-21 22:09:05.647][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.649][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.650][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.652][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-07-21 22:09:05.661][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.665][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.669][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.675][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[2024-07-21 22:09:05.729][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-21 22:09:05.730][private$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[2024-07-21 22:09:05.731][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-07-21 22:09:05.744][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.746][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.747][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-21 22:09:05.748][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.749][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-21 22:09:05.764][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-21 22:09:05.765][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-21 22:09:05.766][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-21 22:09:05.767][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-21 22:09:05.768][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-21 22:09:05.769][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-21 22:09:05.770][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.774][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.778][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.782][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:05.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:05.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.785][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-21 22:09:05.786][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-21 22:09:05.787][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-07-21 22:09:05.797][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.798][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.800][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.801][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-07-21 22:09:05.811][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.815][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.819][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.825][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-07-21 22:09:05.827][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-07-21 22:09:05.827][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-07-21 22:09:05.828][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-07-21 22:09:05.830][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.831][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.832][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-21 22:09:05.834][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.835][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-21 22:09:05.836][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-21 22:09:05.837][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-21 22:09:05.838][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-21 22:09:05.839][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-21 22:09:05.840][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-21 22:09:05.840][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-21 22:09:05.846][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.850][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.854][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.857][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:05.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.861][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-21 22:09:05.862][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-21 22:09:05.863][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-07-21 22:09:05.875][biodb::testThat]
biodb.INFO [2024-07-21 22:09:05.876][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-07-21 22:09:05.877][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:05.878][biodb::testThat]
biodb.TRACE[2024-07-21 22:09:05.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.895][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.908][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-07-21 22:09:05.910][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-21 22:09:05.910][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-21 22:09:05.912][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.913][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.915][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-21 22:09:05.916][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:05.917][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-21 22:09:05.918][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-21 22:09:05.919][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-21 22:09:05.920][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-21 22:09:05.921][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-21 22:09:05.922][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-21 22:09:05.923][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-21 22:09:05.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.935][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:05.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:05.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:05.944][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-21 22:09:05.945][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-07-21 22:09:05.958][biodb::testThat]
biodb.INFO [2024-07-21 22:09:05.959][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-07-21 22:09:05.960][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:05.961][biodb::testThat]
biodb.TRACE[2024-07-21 22:09:05.983][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-21 22:09:05.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-21 22:09:05.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.987][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-21 22:09:05.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-21 22:09:05.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.991][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-21 22:09:05.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-21 22:09:05.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:05.995][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-21 22:09:05.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-21 22:09:05.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:05.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:06.037][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-21 22:09:06.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-21 22:09:06.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:06.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:06.041][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-21 22:09:06.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-21 22:09:06.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:06.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:06.044][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-21 22:09:06.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-21 22:09:06.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:06.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:06.048][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-21 22:09:06.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-21 22:09:06.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:06.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-21 22:09:06.057][biodb::testThat]
biodb.INFO [2024-07-21 22:09:06.057][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-07-21 22:09:06.058][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:06.059][biodb::testThat]
biodb.INFO [2024-07-21 22:09:06.066][biodb::testThat]
biodb.INFO [2024-07-21 22:09:06.067][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-07-21 22:09:06.068][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:06.069][biodb::testThat]
biodb.INFO [2024-07-21 22:09:06.076][biodb::testThat]
biodb.INFO [2024-07-21 22:09:06.077][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-07-21 22:09:06.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:06.079][biodb::testThat]
biodb.DEBUG[2024-07-21 22:09:06.082][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-07-21 22:09:07.312][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-07-21 22:09:07.355][biodb::testThat]
biodb.INFO [2024-07-21 22:09:07.357][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-07-21 22:09:07.359][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:07.360][biodb::testThat]
biodb.DEBUG[2024-07-21 22:09:07.712][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-07-21 22:09:07.743][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:07.784][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:07.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.792][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:07.794][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:07.795][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:07.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.798][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:07.799][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:07.801][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:07.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.803][ef$get] fields variable is a list.
biodb.INFO [2024-07-21 22:09:07.805][biodb::testThat]
biodb.INFO [2024-07-21 22:09:07.806][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-07-21 22:09:07.807][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:07.809][biodb::testThat]
biodb.DEBUG[2024-07-21 22:09:07.811][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-07-21 22:09:07.861][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-21 22:09:07.863][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:07.864][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-21 22:09:07.880][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-07-21 22:09:07.882][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-21 22:09:07.883][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-21 22:09:07.884][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-21 22:09:07.885][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:07.891][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-21 22:09:07.892][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-21 22:09:07.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:07.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:07.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:07.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:07.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:07.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:07.903][FUN] Functions in observer BiodbConfig: [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[2024-07-21 22:09:07.904][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:07.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:07.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:07.908][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:07.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:07.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:07.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:07.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:07.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:07.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:07.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:07.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:07.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:07.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:07.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:07.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:07.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:07.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:07.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:07.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:07.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:07.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:07.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:07.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:07.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:07.935][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-07-21 22:09:07.936][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-07-21 22:09:07.951][biodb::testThat]
biodb.INFO [2024-07-21 22:09:07.952][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-07-21 22:09:07.953][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:07.954][biodb::testThat]
biodb.DEBUG[2024-07-21 22:09:07.962][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-07-21 22:09:07.963][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-07-21 22:09:07.964][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-21 22:09:07.966][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:07.967][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-21 22:09:07.969][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-07-21 22:09:07.970][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-21 22:09:07.971][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-21 22:09:07.972][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-21 22:09:07.973][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:07.975][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-21 22:09:07.976][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-21 22:09:07.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:07.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:07.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:07.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:07.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:07.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:07.986][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.TRACE[2024-07-21 22:09:07.987][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:07.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:07.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.020][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:08.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:08.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:08.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:08.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:08.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:08.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:08.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:08.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:08.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:08.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:08.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:08.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:08.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:08.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:08.047][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-07-21 22:09:08.047][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-07-21 22:09:08.048][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-07-21 22:09:08.060][biodb::testThat]
biodb.INFO [2024-07-21 22:09:08.061][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-07-21 22:09:08.062][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:08.063][biodb::testThat]
biodb.INFO [2024-07-21 22:09:08.083][biodb::testThat]
biodb.INFO [2024-07-21 22:09:08.084][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-07-21 22:09:08.085][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:08.086][biodb::testThat]
biodb.DEBUG[2024-07-21 22:09:08.088][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:08.089][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:08.091][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-21 22:09:08.092][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:08.093][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-21 22:09:08.094][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-21 22:09:08.095][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-21 22:09:08.096][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-21 22:09:08.097][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-07-21 22:09:08.104][biodb::testThat]
biodb.INFO [2024-07-21 22:09:08.105][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-07-21 22:09:08.106][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:08.107][biodb::testThat]
biodb.DEBUG[2024-07-21 22:09:08.109][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:08.110][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:08.112][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-21 22:09:08.113][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:08.114][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-21 22:09:08.115][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-21 22:09:08.116][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-21 22:09:08.117][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-21 22:09:08.118][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-07-21 22:09:08.131][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:08.132][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:08.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.134][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.134][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:08.135][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:08.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.137][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.138][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:08.139][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:08.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.141][ef$get] fields variable is a list.
biodb.INFO [2024-07-21 22:09:08.142][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-21 22:09:08.143][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-21 22:09:08.151][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-21 22:09:08.152][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-21 22:09:08.152][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.154][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.156][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.157][FUN] Functions in observer BiodbConfig: [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 [2024-07-21 22:09:08.160][biodb::testContext]
biodb.INFO [2024-07-21 22:09:08.161][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-21 22:09:08.162][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-07-21 22:09:08.163][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-21 22:09:08.164][biodb::testContext]
biodb.INFO [2024-07-21 22:09:08.168][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-07-21 22:09:08.170][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-07-21 22:09:08.173][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-21 22:09:08.174][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-21 22:09:08.175][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-21 22:09:08.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.179][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-21 22:09:08.180][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-21 22:09:08.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.183][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-21 22:09:08.184][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-21 22:09:08.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.188][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-21 22:09:08.189][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-21 22:09:08.190][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-21 22:09:08.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.193][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-21 22:09:08.194][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-21 22:09:08.195][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-21 22:09:08.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.198][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-21 22:09:08.199][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-21 22:09:08.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.203][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-21 22:09:08.204][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-21 22:09:08.205][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-21 22:09:08.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.208][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-21 22:09:08.209][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-21 22:09:08.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.212][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-21 22:09:08.213][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-21 22:09:08.214][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-21 22:09:08.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.218][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-21 22:09:08.219][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-21 22:09:08.223][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-21 22:09:08.225][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-21 22:09:08.226][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-21 22:09:08.227][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-21 22:09:08.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.249][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-21 22:09:08.251][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-21 22:09:08.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.256][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-21 22:09:08.257][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-21 22:09:08.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.260][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-21 22:09:08.262][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-21 22:09:08.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.265][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-21 22:09:08.267][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-21 22:09:08.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.269][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[2024-07-21 22:09:08.270][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-21 22:09:08.272][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-21 22:09:08.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.275][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-21 22:09:08.276][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-21 22:09:08.280][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-21 22:09:08.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.282][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[2024-07-21 22:09:08.283][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-21 22:09:08.284][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-21 22:09:08.286][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-21 22:09:08.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.290][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-21 22:09:08.292][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.293][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-21 22:09:08.294][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.295][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:08.296][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.297][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.298][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.299][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.300][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-21 22:09:08.301][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:08.302][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.303][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-21 22:09:08.304][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:08.305][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.306][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.307][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-21 22:09:08.307][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-21 22:09:08.307][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-21 22:09:08.307][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-21 22:09:08.307][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-21 22:09:08.308][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:08.309][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:08.310][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:08.311][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:08.312][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:08.313][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:08.314][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.315][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.316][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:08.317][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:08.318][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.319][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.320][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-21 22:09:08.322][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.323][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-21 22:09:08.324][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.325][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:08.326][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.327][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.329][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.330][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.331][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-21 22:09:08.332][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:08.333][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.334][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-21 22:09:08.335][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:08.336][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.337][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.338][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-21 22:09:08.338][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-21 22:09:08.338][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-21 22:09:08.338][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-21 22:09:08.338][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-21 22:09:08.339][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:08.340][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:08.341][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:08.342][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:08.343][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:08.344][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:08.345][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.346][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.347][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:08.348][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:08.349][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.350][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.351][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-21 22:09:08.353][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.354][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-21 22:09:08.354][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.355][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:08.356][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.357][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.358][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.364][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.366][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-21 22:09:08.367][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:08.368][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.369][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-21 22:09:08.369][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:08.370][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.371][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.372][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.373][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:08.374][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:08.375][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:08.376][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:08.377][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:08.378][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:08.379][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.380][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.381][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:08.381][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:08.382][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.383][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.384][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-21 22:09:08.386][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.387][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-21 22:09:08.388][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.389][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:08.390][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.391][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.392][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.393][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.394][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-21 22:09:08.395][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:08.396][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.397][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-21 22:09:08.398][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:08.398][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.399][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.400][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.401][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:08.402][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:08.403][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:08.404][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:08.405][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:08.406][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:08.407][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.408][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.409][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:08.409][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:08.410][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.411][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.413][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-21 22:09:08.414][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.415][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[2024-07-21 22:09:08.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.449][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[2024-07-21 22:09:08.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.472][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[2024-07-21 22:09:08.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.493][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[2024-07-21 22:09:08.494][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-21 22:09:08.496][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-21 22:09:08.497][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-21 22:09:08.498][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-21 22:09:08.500][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-21 22:09:08.501][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-21 22:09:08.503][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-21 22:09:08.504][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-21 22:09:08.506][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-21 22:09:08.507][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-21 22:09:08.508][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-21 22:09:08.510][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-21 22:09:08.511][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-21 22:09:08.513][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-21 22:09:08.514][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-21 22:09:08.516][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-21 22:09:08.517][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-21 22:09:08.518][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-21 22:09:08.520][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-21 22:09:08.521][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-21 22:09:08.523][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-21 22:09:08.524][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-21 22:09:08.525][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-21 22:09:08.527][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-21 22:09:08.528][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-21 22:09:08.530][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-21 22:09:08.531][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-21 22:09:08.532][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-21 22:09:08.534][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-21 22:09:08.535][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-21 22:09:08.537][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-21 22:09:08.538][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-21 22:09:08.539][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-21 22:09:08.541][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-21 22:09:08.542][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-21 22:09:08.543][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-21 22:09:08.545][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-21 22:09:08.546][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-21 22:09:08.547][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-21 22:09:08.549][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-21 22:09:08.550][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-21 22:09:08.552][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-21 22:09:08.553][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-21 22:09:08.554][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-21 22:09:08.556][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-21 22:09:08.557][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-21 22:09:08.559][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-21 22:09:08.560][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-21 22:09:08.562][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-21 22:09:08.563][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-21 22:09:08.565][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-21 22:09:08.566][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-21 22:09:08.574][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-21 22:09:08.576][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-21 22:09:08.578][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-21 22:09:08.579][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-21 22:09:08.581][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-21 22:09:08.582][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-21 22:09:08.583][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-21 22:09:08.585][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-21 22:09:08.586][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-21 22:09:08.587][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-21 22:09:08.589][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-21 22:09:08.590][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-21 22:09:08.591][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-21 22:09:08.593][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-21 22:09:08.594][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-21 22:09:08.596][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-21 22:09:08.597][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-21 22:09:08.598][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-21 22:09:08.600][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-21 22:09:08.601][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-21 22:09:08.602][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-21 22:09:08.604][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-21 22:09:08.605][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-21 22:09:08.606][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-21 22:09:08.608][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-21 22:09:08.609][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-21 22:09:08.610][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-21 22:09:08.612][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-21 22:09:08.613][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-21 22:09:08.614][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-21 22:09:08.615][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-21 22:09:08.622][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-21 22:09:08.623][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-07-21 22:09:08.625][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-21 22:09:08.625][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.627][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:08.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:08.736][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-21 22:09:08.738][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:08.740][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.741][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.741][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.742][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:08.743][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.744][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-21 22:09:08.745][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.746][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.747][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-21 22:09:08.748][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:08.749][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.750][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-21 22:09:08.751][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-21 22:09:08.752][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-21 22:09:08.753][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:08.754][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-21 22:09:08.754][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-21 22:09:08.754][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-21 22:09:08.755][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-21 22:09:08.756][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:08.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:08.758][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:08.758][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:08.759][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:08.760][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:08.761][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-21 22:09:08.761][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-21 22:09:08.762][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:08.763][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:08.764][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:08.765][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:08.766][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-21 22:09:08.767][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-21 22:09:08.769][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-21 22:09:08.770][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-21 22:09:08.776][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-21 22:09:08.780][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:08.781][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-21 22:09:08.782][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:08.783][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-21 22:09:08.785][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:08.785][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:08.787][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-21 22:09:08.788][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-21 22:09:08.789][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-21 22:09:08.789][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-21 22:09:08.790][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:08.791][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:08.791][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-21 22:09:08.792][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-21 22:09:08.793][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:08.795][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-21 22:09:08.796][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:08.797][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:08.798][private$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[2024-07-21 22:09:08.799][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:08.800][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-21 22:09:08.801][biodb::testThat]
biodb.INFO [2024-07-21 22:09:08.802][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-07-21 22:09:08.803][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:08.804][biodb::testThat]
biodb.DEBUG[2024-07-21 22:09:08.808][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:08.809][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:08.811][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-21 22:09:08.812][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:08.813][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-21 22:09:08.814][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-21 22:09:08.815][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-21 22:09:08.816][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-21 22:09:08.817][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-21 22:09:08.820][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-07-21 22:09:08.825][biodb::testThat]
biodb.INFO [2024-07-21 22:09:08.826][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-07-21 22:09:08.827][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:08.827][biodb::testThat]
biodb.DEBUG[2024-07-21 22:09:08.829][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-07-21 22:09:08.830][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-21 22:09:08.832][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:08.833][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-21 22:09:08.835][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-07-21 22:09:08.836][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-21 22:09:08.838][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-21 22:09:08.839][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-21 22:09:08.840][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-21 22:09:08.841][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-21 22:09:08.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:08.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:08.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:08.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:08.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:08.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:08.851][FUN] Functions in observer BiodbConfig: [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[2024-07-21 22:09:08.855][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:08.856][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:08.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.858][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:08.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:08.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.863][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:08.864][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:08.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.865][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.867][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:08.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:08.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.871][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:08.872][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:08.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.873][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.875][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:08.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:08.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.879][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:08.880][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:08.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.887][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.888][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:08.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:08.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:08.893][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:08.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.895][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:08.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:08.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.900][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:08.902][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:08.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.904][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:08.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:08.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.910][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:08.911][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:08.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.913][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.914][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:08.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:08.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.918][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:08.919][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:08.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.921][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.922][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:08.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:08.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.926][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:08.927][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:08.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.929][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.930][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:08.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:08.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.934][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:08.935][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:08.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.937][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.938][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:08.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:08.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.942][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:08.943][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:08.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.945][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.946][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:08.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:08.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.950][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:08.951][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:08.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.953][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:08.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:08.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.959][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:08.960][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:08.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.961][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:08.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:08.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.966][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:08.967][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:08.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.969][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:08.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:08.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.974][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:08.975][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:08.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.977][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.978][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:08.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:08.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.982][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:08.983][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:08.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.985][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.986][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:08.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:08.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:08.996][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:08.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:08.998][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:08.999][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:09.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:09.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.003][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-21 22:09:09.004][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:09.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.006][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.007][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-21 22:09:09.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:09.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.023][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:09.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:09.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.026][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:09.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:09.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.030][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:09.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:09.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.034][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:09.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:09.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.038][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:09.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:09.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.042][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:09.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:09.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:09.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:09.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:09.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:09.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:09.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:09.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:09.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:09.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:09.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:09.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:09.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:09.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.068][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:09.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:09.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.072][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:09.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:09.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.076][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:09.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:09.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.080][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:09.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:09.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.083][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:09.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:09.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.087][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:09.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:09.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.097][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:09.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:09.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.100][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:09.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:09.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.104][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:09.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:09.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.108][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:09.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:09.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.112][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:09.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:09.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.115][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:09.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:09.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.119][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:09.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:09.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.123][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:09.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:09.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.127][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:09.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:09.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:09.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:09.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:09.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:09.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:09.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:09.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.153][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:09.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:09.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.157][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:09.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:09.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.161][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:09.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:09.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:09.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:09.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:09.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:09.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:09.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:09.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.176][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:09.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:09.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.180][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:09.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:09.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.184][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:09.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:09.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.188][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:09.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:09.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.197][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:09.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:09.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.201][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:09.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:09.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.204][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:09.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:09.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.208][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:09.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:09.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.212][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:09.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:09.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.216][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:09.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:09.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.220][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:09.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:09.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.224][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:09.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:09.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.228][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-21 22:09:09.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.245][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-21 22:09:09.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:09.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:09.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:09.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:09.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:09.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:09.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:09.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.262][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:09.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:09.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:09.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:09.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.271][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:09.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:09.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.275][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:09.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:09.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.283][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:09.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:09.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:09.317][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-07-21 22:09:09.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:09.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:09.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:09.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:09.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-21 22:09:09.335][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-21 22:09:09.337][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-21 22:09:09.338][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-21 22:09:09.339][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-21 22:09:09.339][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.341][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.343][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-21 22:09:09.348][biodb::testContext]
biodb.INFO [2024-07-21 22:09:09.349][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-21 22:09:09.350][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-07-21 22:09:09.351][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-21 22:09:09.352][biodb::testContext]
biodb.INFO [2024-07-21 22:09:09.355][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-07-21 22:09:09.357][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-07-21 22:09:09.361][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-21 22:09:09.362][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-21 22:09:09.363][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-21 22:09:09.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.366][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-21 22:09:09.367][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-21 22:09:09.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.371][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-21 22:09:09.372][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-21 22:09:09.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.375][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-21 22:09:09.376][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-21 22:09:09.377][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-21 22:09:09.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.381][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-21 22:09:09.382][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-21 22:09:09.383][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-21 22:09:09.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.386][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-21 22:09:09.387][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-21 22:09:09.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.391][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-21 22:09:09.392][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-21 22:09:09.393][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-21 22:09:09.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.396][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-21 22:09:09.397][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-21 22:09:09.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.401][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-21 22:09:09.402][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-21 22:09:09.403][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-21 22:09:09.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.406][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-21 22:09:09.413][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-21 22:09:09.415][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-21 22:09:09.416][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-21 22:09:09.417][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-21 22:09:09.418][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-21 22:09:09.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.421][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-21 22:09:09.422][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-21 22:09:09.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.425][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[2024-07-21 22:09:09.426][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-21 22:09:09.427][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-21 22:09:09.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.431][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-21 22:09:09.432][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-21 22:09:09.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.435][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-21 22:09:09.436][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-21 22:09:09.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.440][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-21 22:09:09.441][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-21 22:09:09.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.444][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.DEBUG[2024-07-21 22:09:09.445][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-21 22:09:09.446][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-21 22:09:09.451][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-21 22:09:09.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.455][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-21 22:09:09.456][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-21 22:09:09.457][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-21 22:09:09.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.460][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[2024-07-21 22:09:09.461][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-21 22:09:09.463][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.464][self$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[2024-07-21 22:09:09.465][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.466][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:09.467][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.468][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.469][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.470][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.471][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-21 22:09:09.472][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:09.473][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.474][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-21 22:09:09.475][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:09.476][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.477][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.478][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-21 22:09:09.478][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-21 22:09:09.478][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-21 22:09:09.478][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-21 22:09:09.478][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-21 22:09:09.479][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:09.480][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:09.481][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:09.482][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:09.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:09.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:09.485][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.486][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.487][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:09.488][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:09.489][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.490][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.491][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-21 22:09:09.493][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.494][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-21 22:09:09.495][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.496][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:09.497][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.498][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.499][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.500][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.501][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-21 22:09:09.502][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:09.503][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.504][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-21 22:09:09.505][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:09.506][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.507][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.508][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-21 22:09:09.508][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-21 22:09:09.508][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-21 22:09:09.508][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-21 22:09:09.508][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-21 22:09:09.509][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:09.510][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:09.511][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:09.512][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:09.513][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:09.514][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:09.515][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.516][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.517][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:09.524][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:09.525][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.526][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.527][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-21 22:09:09.529][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.530][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-21 22:09:09.531][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.532][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:09.533][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.534][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.535][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.538][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.541][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-21 22:09:09.542][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:09.543][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.544][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-21 22:09:09.546][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:09.547][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.548][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.549][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.550][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:09.552][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:09.553][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:09.554][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:09.555][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:09.556][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:09.557][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.558][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.559][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:09.560][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:09.561][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.562][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.564][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-21 22:09:09.566][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.567][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-21 22:09:09.568][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.569][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:09.570][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.571][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.573][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.574][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.575][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-21 22:09:09.576][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:09.577][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.578][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-21 22:09:09.579][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:09.580][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.582][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.583][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.584][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-21 22:09:09.585][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:09.586][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:09.587][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:09.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:09.589][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:09.590][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.591][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.592][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:09.593][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:09.594][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.595][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.597][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-21 22:09:09.598][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.691][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[2024-07-21 22:09:09.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.696][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-21 22:09:09.698][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-21 22:09:09.699][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-21 22:09:09.701][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-21 22:09:09.702][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-21 22:09:09.703][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-21 22:09:09.705][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-21 22:09:09.706][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-21 22:09:09.708][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-21 22:09:09.709][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-21 22:09:09.710][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-21 22:09:09.712][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-21 22:09:09.713][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-21 22:09:09.714][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-21 22:09:09.716][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-21 22:09:09.717][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-21 22:09:09.718][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-21 22:09:09.720][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-21 22:09:09.721][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-21 22:09:09.722][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-21 22:09:09.724][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-21 22:09:09.725][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-21 22:09:09.726][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-21 22:09:09.728][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-21 22:09:09.729][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-21 22:09:09.730][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-21 22:09:09.732][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-21 22:09:09.733][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-21 22:09:09.734][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-21 22:09:09.736][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-21 22:09:09.737][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-21 22:09:09.738][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-21 22:09:09.740][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-21 22:09:09.741][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-21 22:09:09.742][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-21 22:09:09.744][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-21 22:09:09.745][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-21 22:09:09.746][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-21 22:09:09.753][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-21 22:09:09.755][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-21 22:09:09.756][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-21 22:09:09.758][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-21 22:09:09.759][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-21 22:09:09.760][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-21 22:09:09.762][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-21 22:09:09.763][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-21 22:09:09.764][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-21 22:09:09.766][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-21 22:09:09.767][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-21 22:09:09.768][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-21 22:09:09.770][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-21 22:09:09.771][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-21 22:09:09.773][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-21 22:09:09.774][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-21 22:09:09.775][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-21 22:09:09.776][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-21 22:09:09.778][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-21 22:09:09.779][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-21 22:09:09.781][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-21 22:09:09.782][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-21 22:09:09.783][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-21 22:09:09.785][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-21 22:09:09.786][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-21 22:09:09.788][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-21 22:09:09.789][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-21 22:09:09.790][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-21 22:09:09.792][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-21 22:09:09.793][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-21 22:09:09.794][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-21 22:09:09.796][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-21 22:09:09.797][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-21 22:09:09.799][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-21 22:09:09.800][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-21 22:09:09.802][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-21 22:09:09.803][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-21 22:09:09.804][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-21 22:09:09.806][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-21 22:09:09.807][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-21 22:09:09.809][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-21 22:09:09.810][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-21 22:09:09.811][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-21 22:09:09.813][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-21 22:09:09.814][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-21 22:09:09.816][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-21 22:09:09.817][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-07-21 22:09:09.818][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-21 22:09:09.819][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.821][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.888][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.DEBUG[2024-07-21 22:09:09.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-21 22:09:09.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:09.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:09.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:09.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:09.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:09.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:09.932][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-21 22:09:09.934][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:09.936][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.937][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.938][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.939][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-21 22:09:09.939][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.940][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-21 22:09:09.941][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.942][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.943][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-21 22:09:09.944][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-21 22:09:09.945][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.946][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-21 22:09:09.952][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-21 22:09:09.953][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-21 22:09:09.955][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-21 22:09:09.956][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-21 22:09:09.956][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-21 22:09:09.956][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-21 22:09:09.956][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-21 22:09:09.957][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:09.958][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:09.959][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-21 22:09:09.960][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-21 22:09:09.961][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-21 22:09:09.962][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-21 22:09:09.963][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-21 22:09:09.963][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-21 22:09:09.964][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:09.964][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:09.965][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-21 22:09:09.966][self$setPropertyValue]
biodb.DEBUG[2024-07-21 22:09:09.968][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-21 22:09:09.969][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-21 22:09:09.971][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-21 22:09:09.972][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-21 22:09:09.974][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-21 22:09:09.977][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:09.978][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-21 22:09:09.979][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:09.980][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-21 22:09:09.982][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:09.983][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:09.984][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-21 22:09:09.985][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-21 22:09:09.986][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-21 22:09:09.986][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-21 22:09:09.987][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-21 22:09:09.988][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-21 22:09:09.988][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-21 22:09:09.989][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-21 22:09:09.990][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-21 22:09:09.992][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-21 22:09:09.993][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:09.994][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:09.995][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-21 22:09:09.996][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-21 22:09:09.997][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-21 22:09:09.999][biodb::testThat]
biodb.INFO [2024-07-21 22:09:10.000][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-07-21 22:09:10.001][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-21 22:09:10.002][biodb::testThat]
biodb.DEBUG[2024-07-21 22:09:10.004][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-21 22:09:10.005][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-07-21 22:09:10.006][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-07-21 22:09:10.009][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:10.010][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:10.012][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-21 22:09:10.013][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:10.014][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-21 22:09:10.016][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-21 22:09:10.017][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-21 22:09:10.018][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-21 22:09:10.019][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-21 22:09:10.020][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-21 22:09:10.020][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-07-21 22:09:10.022][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-07-21 22:09:10.023][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-21 22:09:10.025][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:10.026][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-21 22:09:10.028][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-07-21 22:09:10.029][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-21 22:09:10.031][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-07-21 22:09:10.032][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-21 22:09:10.033][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-21 22:09:10.035][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-21 22:09:10.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:10.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:10.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:10.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:10.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:10.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:10.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-21 22:09:10.049][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.050][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.052][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.063][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.064][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.066][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.067][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.071][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.072][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.074][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.076][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.080][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.081][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.082][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.084][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.088][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.089][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.091][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.096][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.097][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.099][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.104][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.105][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.108][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.112][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.113][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.115][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.117][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.121][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.122][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.123][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.129][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.130][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.132][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.133][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.137][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:10.138][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:10.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.140][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.141][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:10.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:10.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.145][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:10.146][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:10.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.148][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:10.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:10.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.154][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.155][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.157][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.169][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.170][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.172][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.178][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.179][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.180][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.182][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.186][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.187][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.188][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.190][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.194][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:10.195][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:10.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.198][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:10.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:10.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.202][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-21 22:09:10.203][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.204][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.206][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-21 22:09:10.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.221][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.225][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.229][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.233][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.237][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.240][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.281][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.285][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.288][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.292][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.296][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.300][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.304][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.308][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.312][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.316][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.319][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.323][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.327][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:10.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:10.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.331][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:10.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:10.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.335][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:10.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:10.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:10.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:10.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.342][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:10.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:10.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:10.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:10.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.350][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.361][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.365][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.368][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.389][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.392][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.396][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.400][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.404][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.407][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.411][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.415][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.418][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.422][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:10.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:10.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.426][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:10.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:10.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.430][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:10.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:10.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.433][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-21 22:09:10.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.449][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-21 22:09:10.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.457][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.477][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:10.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:10.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.481][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:10.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:10.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.489][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:10.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:10.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:10.515][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-21 22:09:10.516][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.520][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.524][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.527][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:10.531][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-21 22:09:10.532][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-21 22:09:10.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:10.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:10.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:10.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:10.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:10.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:10.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:10.555][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-07-21 22:09:10.557][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-21 22:09:10.558][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:10.560][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-21 22:09:10.562][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-07-21 22:09:10.563][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-21 22:09:10.564][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-21 22:09:10.565][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-21 22:09:10.566][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-21 22:09:10.568][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-21 22:09:10.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:10.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:10.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:10.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:10.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:10.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:10.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-21 22:09:10.587][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.588][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.589][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.594][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.595][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.597][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.599][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.602][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.603][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.605][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.607][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.610][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.611][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.613][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.615][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.619][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.620][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.622][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.627][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.628][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.630][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.636][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.637][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.638][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.640][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.644][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.645][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.647][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.648][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.652][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.653][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.655][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.657][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.661][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.662][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.663][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.665][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.669][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:10.670][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:10.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.672][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.673][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:10.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:10.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.677][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:10.678][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:10.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.687][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.689][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:10.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:10.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.694][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.695][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.702][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.703][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.705][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.710][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.711][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.713][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.718][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.719][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.721][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.722][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.726][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:10.727][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:10.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.729][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.730][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:10.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:10.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.734][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-21 22:09:10.735][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.737][ef$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.739][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-21 22:09:10.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:10.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:10.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.754][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.758][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.762][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-21 22:09:10.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.766][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.770][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.774][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-21 22:09:10.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-21 22:09:10.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-21 22:09:10.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.807][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.811][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.815][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-21 22:09:10.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.819][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.823][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.827][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-21 22:09:10.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.831][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.834][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.838][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-21 22:09:10.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.842][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.846][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.850][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:10.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:10.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.854][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:10.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:10.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.857][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:10.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:10.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.861][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-21 22:09:10.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-21 22:09:10.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:10.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:10.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:10.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:10.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-21 22:09:10.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-21 22:09:10.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.888][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.897][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.902][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-21 22:09:10.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-21 22:09:10.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.928][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.932][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.936][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-21 22:09:10.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.939][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.943][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.947][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-21 22:09:10.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.951][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:10.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:10.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.955][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:10.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:10.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.958][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-21 22:09:10.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-21 22:09:10.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.962][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-21 22:09:10.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.977][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-21 22:09:10.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-21 22:09:10.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.982][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.986][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:10.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:10.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:10.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:10.999][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:11.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:11.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-21 22:09:11.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-21 22:09:11.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.008][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:11.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:11.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.011][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:11.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:11.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:11.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:11.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.019][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:11.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-21 22:09:11.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:11.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:11.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:11.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:11.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:11.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:11.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:11.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:11.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:11.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:11.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-21 22:09:11.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-21 22:09:11.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:11.046][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-07-21 22:09:11.047][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.050][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.054][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.058][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:11.062][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-21 22:09:11.062][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-07-21 22:09:11.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:11.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:11.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:11.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:11.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:11.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:11.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:11.077][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-21 22:09:11.078][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-07-21 22:09:11.079][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-07-21 22:09:11.081][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:11.082][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:11.084][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-21 22:09:11.085][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:11.086][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-21 22:09:11.087][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-21 22:09:11.088][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-21 22:09:11.089][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-21 22:09:11.090][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-21 22:09:11.091][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-21 22:09:11.092][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-21 22:09:11.093][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.102][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.107][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.110][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.114][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.118][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.122][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:11.125][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-21 22:09:11.126][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-21 22:09:11.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:11.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:11.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:11.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:11.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:11.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:11.135][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.TRACE[2024-07-21 22:09:11.137][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.140][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.144][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.148][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.152][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.155][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.159][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:11.163][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-07-21 22:09:11.164][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-21 22:09:11.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:11.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:11.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:11.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:11.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:11.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:11.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-21 22:09:11.178][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-21 22:09:11.179][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-07-21 22:09:11.179][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-07-21 22:09:11.181][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:11.182][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:11.184][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-21 22:09:11.185][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-21 22:09:11.186][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-21 22:09:11.187][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-21 22:09:11.188][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-21 22:09:11.189][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-21 22:09:11.190][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-21 22:09:11.191][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-21 22:09:11.192][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-21 22:09:11.193][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.202][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.207][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.211][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.214][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.218][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.222][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:11.226][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-07-21 22:09:11.227][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-07-21 22:09:11.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:11.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:11.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:11.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:11.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:11.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:11.242][FUN] Functions in observer BiodbConfig: [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[2024-07-21 22:09:11.244][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.249][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.253][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.257][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.262][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.266][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-21 22:09:11.270][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-21 22:09:11.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-21 22:09:11.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-21 22:09:11.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-21 22:09:11.274][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-21 22:09:11.275][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-21 22:09:11.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-21 22:09:11.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:11.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:11.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:11.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:11.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:11.286][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.INFO [2024-07-21 22:09:11.294][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-21 22:09:11.295][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-21 22:09:11.296][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-21 22:09:11.297][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-21 22:09:11.298][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-21 22:09:11.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-21 22:09:11.300][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-21 22:09:11.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-21 22:09:11.302][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-21 22:09:11.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
8.680 0.510 10.522