Pierrick Roger
| Snapshot Date: 2024-07-17 14:00 -0400 (Wed, 17 Jul 2024) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: devel |
| git_last_commit: c3d59a4 |
| git_last_commit_date: 2024-04-30 11:39:05 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-07-18 11:38 -0400 (Thu, 18 Jul 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4683 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4379 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4450 |
| kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4399 |
| 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 202/2248 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.11.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | 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: 1.11.0 |
| Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings biodbHmdb_1.11.0.tar.gz |
| StartedAt: 2024-07-17 21:27:09 -0400 (Wed, 17 Jul 2024) |
| EndedAt: 2024-07-17 21:27:58 -0400 (Wed, 17 Jul 2024) |
| EllapsedTime: 49.1 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
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###
### Running command:
###
### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings biodbHmdb_1.11.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.20-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 ‘1.11.0’
* 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-3.20-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 ... NOTE
installed size is 7.5Mb
sub-directories of 1Mb or more:
libs 6.9Mb
* 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, 3 NOTEs
See
‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
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###
### Running command:
###
### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-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-3.20-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-3.20-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.20-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 [2024-07-17 21:27:42.905][biodb::testContext]
biodb.INFO [2024-07-17 21:27:42.908][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 21:27:42.909][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-07-17 21:27:42.909][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 21:27:42.910][biodb::testContext]
biodb.INFO [2024-07-17 21:27:42.912][biodb::testThat]
biodb.INFO [2024-07-17 21:27:42.913][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-07-17 21:27:42.914][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:42.915][biodb::testThat]
biodb.INFO [2024-07-17 21:27:43.004][biodb::testContext]
biodb.INFO [2024-07-17 21:27:43.006][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 21:27:43.006][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-07-17 21:27:43.007][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 21:27:43.008][biodb::testContext]
biodb.INFO [2024-07-17 21:27:43.021][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-17 21:27:43.044][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-07-17 21:27:43.052][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 21:27:43.053][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-17 21:27:43.054][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-17 21:27:43.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.058][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-17 21:27:43.078][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-17 21:27:43.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.082][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-17 21:27:43.083][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-17 21:27:43.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.086][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-17 21:27:43.087][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-17 21:27:43.088][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-17 21:27:43.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.092][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-17 21:27:43.093][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-17 21:27:43.094][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-17 21:27:43.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.097][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-17 21:27:43.098][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-17 21:27:43.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.102][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-17 21:27:43.103][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-17 21:27:43.104][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-17 21:27:43.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.108][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-17 21:27:43.109][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-17 21:27:43.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.112][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-17 21:27:43.113][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-17 21:27:43.114][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-17 21:27:43.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.118][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-17 21:27:43.119][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-17 21:27:43.120][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-17 21:27:43.121][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-17 21:27:43.122][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-17 21:27:43.123][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-17 21:27:43.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.126][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-17 21:27:43.127][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-17 21:27:43.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.131][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-17 21:27:43.132][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-17 21:27:43.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.135][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-17 21:27:43.136][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-17 21:27:43.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.140][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-17 21:27:43.141][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-17 21:27:43.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.144][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-17 21:27:43.145][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-17 21:27:43.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.149][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-17 21:27:43.150][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-17 21:27:43.153][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-17 21:27:43.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.157][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-17 21:27:43.158][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-17 21:27:43.159][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-17 21:27:43.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.165][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-17 21:27:43.200][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.216][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-17 21:27:43.217][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.224][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:43.225][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.226][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.227][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.227][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.228][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 21:27:43.229][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:43.230][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.231][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-17 21:27:43.232][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:43.233][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.234][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.235][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 21:27:43.235][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 21:27:43.235][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 21:27:43.235][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 21:27:43.235][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 21:27:43.235][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:43.236][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:43.237][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:43.238][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:43.239][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:43.240][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:43.241][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.241][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.242][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:43.243][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:43.244][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.245][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.246][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-17 21:27:43.247][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.248][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 21:27:43.249][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.250][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:43.251][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.252][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.253][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.254][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.255][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 21:27:43.256][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:43.257][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.258][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-17 21:27:43.258][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:43.259][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.260][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.261][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 21:27:43.261][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 21:27:43.261][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 21:27:43.261][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 21:27:43.261][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 21:27:43.262][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:43.263][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:43.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:43.265][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:43.265][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:43.266][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:43.267][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.268][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.269][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:43.270][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:43.271][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.271][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.272][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-17 21:27:43.274][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.275][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-17 21:27:43.276][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.277][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:43.278][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.279][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.280][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.280][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.281][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 21:27:43.282][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:43.283][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.284][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-17 21:27:43.285][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:43.286][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.287][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.288][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.289][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:43.290][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:43.291][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:43.292][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:43.293][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:43.293][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:43.294][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.295][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.296][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:43.297][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:43.298][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.299][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.300][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-17 21:27:43.302][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.303][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 21:27:43.304][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.305][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:43.305][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.306][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.307][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.308][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.309][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 21:27:43.310][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:43.311][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.312][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-17 21:27:43.313][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:43.314][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.315][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.315][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.316][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:43.317][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:43.318][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:43.319][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:43.320][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:43.321][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:43.321][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.322][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.323][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:43.324][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:43.325][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.326][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.330][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 21:27:43.331][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.380][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[2024-07-17 21:27:43.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.405][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[2024-07-17 21:27:43.406][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-17 21:27:43.411][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-17 21:27:43.412][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-17 21:27:43.414][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-17 21:27:43.415][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 21:27:43.416][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 21:27:43.417][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-17 21:27:43.419][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-17 21:27:43.420][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-17 21:27:43.421][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 21:27:43.422][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 21:27:43.424][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-17 21:27:43.425][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-17 21:27:43.426][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-17 21:27:43.428][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-17 21:27:43.429][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 21:27:43.430][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-17 21:27:43.431][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-17 21:27:43.433][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 21:27:43.434][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-17 21:27:43.435][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-17 21:27:43.436][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-17 21:27:43.438][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-17 21:27:43.439][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-17 21:27:43.440][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-17 21:27:43.442][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-17 21:27:43.443][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-17 21:27:43.444][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-17 21:27:43.445][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-17 21:27:43.447][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-17 21:27:43.448][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-17 21:27:43.449][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-17 21:27:43.450][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-17 21:27:43.452][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-17 21:27:43.453][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-17 21:27:43.454][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-17 21:27:43.455][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-17 21:27:43.457][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-17 21:27:43.458][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-17 21:27:43.459][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-17 21:27:43.461][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-17 21:27:43.462][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-17 21:27:43.463][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-17 21:27:43.464][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-17 21:27:43.466][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-17 21:27:43.467][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-17 21:27:43.468][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-17 21:27:43.470][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-17 21:27:43.471][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-17 21:27:43.472][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-17 21:27:43.473][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-17 21:27:43.475][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-17 21:27:43.476][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-17 21:27:43.477][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-17 21:27:43.478][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-17 21:27:43.480][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-17 21:27:43.481][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-17 21:27:43.482][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-17 21:27:43.484][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-17 21:27:43.485][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-17 21:27:43.486][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-17 21:27:43.487][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-17 21:27:43.489][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-17 21:27:43.490][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-17 21:27:43.491][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-17 21:27:43.493][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-17 21:27:43.494][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 21:27:43.495][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 21:27:43.496][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-17 21:27:43.498][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-17 21:27:43.499][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-17 21:27:43.500][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-17 21:27:43.502][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-17 21:27:43.503][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-17 21:27:43.504][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-17 21:27:43.505][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-17 21:27:43.507][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-17 21:27:43.508][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-17 21:27:43.509][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-17 21:27:43.511][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-17 21:27:43.512][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-17 21:27:43.513][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-17 21:27:43.515][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-17 21:27:43.521][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-17 21:27:43.522][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-17 21:27:43.525][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 21:27:43.526][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.528][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.538][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[2024-07-17 21:27:43.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.549][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[2024-07-17 21:27:43.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.555][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[2024-07-17 21:27:43.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.629][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[2024-07-17 21:27:43.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:43.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:43.637][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-17 21:27:43.648][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:43.650][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.651][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.652][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.653][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:43.654][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.655][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-17 21:27:43.656][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.657][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.658][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-17 21:27:43.659][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:43.660][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.661][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-17 21:27:43.662][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-17 21:27:43.663][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-17 21:27:43.664][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:43.665][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 21:27:43.665][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-17 21:27:43.665][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-17 21:27:43.666][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-17 21:27:43.667][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:43.668][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:43.669][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:43.670][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:43.671][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:43.672][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:43.673][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 21:27:43.673][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-17 21:27:43.674][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:43.675][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:43.676][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:43.677][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:43.684][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-17 21:27:43.685][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 21:27:43.687][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 21:27:43.688][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 21:27:43.690][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 21:27:43.719][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:43.720][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-17 21:27:43.780][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:43.785][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 21:27:43.790][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:43.791][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:43.793][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-17 21:27:43.794][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-17 21:27:43.795][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 21:27:43.795][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-17 21:27:43.796][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:43.797][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:43.798][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-17 21:27:43.799][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-17 21:27:43.800][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:43.818][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 21:27:43.820][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:43.821][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:43.822][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 21:27:43.824][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:43.825][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-17 21:27:43.834][biodb::testThat]
biodb.INFO [2024-07-17 21:27:43.835][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-07-17 21:27:43.836][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:43.837][biodb::testThat]
biodb.TRACE[2024-07-17 21:27:43.842][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-07-17 21:27:43.844][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 21:27:43.848][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 21:27:43.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:43.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:43.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:43.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:43.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:43.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:43.869][FUN] Functions in observer BiodbConfig: [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[2024-07-17 21:27:43.883][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:43.885][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:43.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.886][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:43.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:43.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.906][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:43.907][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:43.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.909][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.938][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:43.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:43.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.942][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:43.944][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:43.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.946][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.947][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:43.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:43.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.952][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:43.953][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:43.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.954][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.956][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:43.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:43.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:43.972][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:43.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.974][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:43.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:43.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.980][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:43.981][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:43.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.982][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:43.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:43.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.988][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:43.989][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:43.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.991][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.992][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:43.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:43.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:43.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:43.997][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:43.998][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:43.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.000][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.001][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.005][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.006][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.008][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.010][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.014][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.015][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.017][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.018][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.023][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:44.024][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:44.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.026][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.027][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:44.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:44.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.031][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:44.032][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:44.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:44.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:44.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.040][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.041][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.043][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.049][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.050][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.052][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.058][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.059][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.061][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.062][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.066][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:44.067][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:44.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.069][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.070][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:44.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:44.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.074][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:44.075][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:44.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.077][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.079][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:44.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:44.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.083][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 21:27:44.084][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.086][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.087][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 21:27:44.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.144][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.149][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.153][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.157][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:44.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:44.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.161][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:44.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:44.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.165][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:44.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:44.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.193][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.197][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.201][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.205][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.209][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.213][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.217][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.225][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.229][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:44.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:44.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.233][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:44.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:44.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.237][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:44.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:44.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.241][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:44.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:44.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.245][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:44.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:44.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.249][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:44.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:44.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:44.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:44.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:44.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:44.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:44.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:44.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.282][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.286][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.290][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.318][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.322][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.326][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.330][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.334][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.338][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.342][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:44.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:44.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.347][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:44.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:44.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.351][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:44.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:44.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.355][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 21:27:44.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.371][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 21:27:44.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:44.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.396][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.419][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.424][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.428][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.436][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:44.466][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-17 21:27:44.468][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 21:27:44.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 21:27:44.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.472][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 21:27:44.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 21:27:44.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.476][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-17 21:27:44.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-17 21:27:44.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.480][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-17 21:27:44.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-17 21:27:44.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.510][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.543][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.547][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.551][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:44.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.581][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.582][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.584][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:44.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:44.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.597][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.601][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.605][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.609][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.610][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.612][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.613][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:44.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.636][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.637][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.639][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:44.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.652][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.656][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.659][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.663][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.664][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.666][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.667][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:44.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.690][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.691][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.693][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:44.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.712][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.716][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.720][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.724][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.725][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.726][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.727][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:44.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.743][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.747][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.750][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.752][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.753][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:44.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:44.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.766][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:44.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:44.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.770][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:44.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:44.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.774][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:44.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:44.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.778][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:44.779][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:44.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.781][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.782][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:44.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:44.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.794][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:44.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:44.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.798][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:44.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:44.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.801][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:44.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:44.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.805][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:44.807][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:44.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.808][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.809][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:44.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:44.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.821][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.825][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.829][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.833][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.834][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.836][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.837][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:44.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.866][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.867][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.869][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:44.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.881][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.886][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.889][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.893][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.894][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.896][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.897][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:44.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.909][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.913][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.917][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.921][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.922][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.924][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.925][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:44.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.936][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.940][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.948][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.949][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.951][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.952][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:44.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.964][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:44.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:44.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.968][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:44.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:44.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.972][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:44.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:44.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.976][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:44.977][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:44.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.979][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.980][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:44.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:44.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:44.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:44.991][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:44.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:44.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:45.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:45.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:45.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:45.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.009][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:45.010][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:45.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.012][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:45.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:45.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.037][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.038][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.040][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.053][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.057][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.061][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.065][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.066][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.068][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.069][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.081][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.082][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.084][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.088][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.089][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.091][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.095][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.096][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.098][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.102][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.104][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.104][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.105][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.110][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.111][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.113][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.117][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.118][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.120][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.124][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.125][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.127][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.131][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:45.133][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:45.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.134][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.145][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:45.146][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:45.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.148][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.152][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:45.153][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:45.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.155][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.159][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:45.160][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:45.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.162][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.167][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.168][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.170][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.174][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.175][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.177][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.181][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.182][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.189][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.190][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.192][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.196][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.197][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.199][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.204][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.205][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.207][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.211][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:45.212][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:45.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.214][ef$get] fields variable is a list.
biodb.INFO [2024-07-17 21:27:45.221][biodb::testThat]
biodb.INFO [2024-07-17 21:27:45.222][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-07-17 21:27:45.223][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:45.224][biodb::testThat]
biodb.DEBUG[2024-07-17 21:27:45.239][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-07-17 21:27:45.247][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 21:27:45.253][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:45.254][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 21:27:45.256][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-07-17 21:27:45.257][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 21:27:45.260][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-07-17 21:27:45.261][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 21:27:45.294][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 21:27:45.295][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 21:27:45.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:45.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:45.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:45.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:45.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:45.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:45.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 21:27:45.310][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.311][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.313][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.319][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.320][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.322][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.323][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.327][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.328][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.330][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.332][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.336][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.337][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.338][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.339][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.340][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.344][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.345][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.347][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.353][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.354][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.356][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.361][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.362][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.364][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.366][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.370][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.371][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.373][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.374][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.378][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.379][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.381][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.383][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.387][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.388][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.390][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.391][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.395][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:45.396][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:45.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.398][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.400][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:45.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:45.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.404][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:45.405][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:45.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.406][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:45.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:45.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.412][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.413][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.415][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.417][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.421][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.422][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.423][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.424][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.429][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.430][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.439][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.444][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:45.445][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:45.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.447][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.448][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:45.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:45.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.452][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:45.453][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:45.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.455][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.457][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:45.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:45.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.461][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 21:27:45.462][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:45.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.466][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 21:27:45.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:45.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.482][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.486][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.490][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:45.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.494][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.498][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.502][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:45.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:45.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:45.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.531][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.535][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.539][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:45.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.543][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.547][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.551][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:45.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.556][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:45.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:45.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.560][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:45.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:45.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.564][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:45.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:45.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.568][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:45.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:45.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.572][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:45.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:45.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.583][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:45.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:45.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.587][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:45.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:45.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.591][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:45.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:45.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.595][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:45.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:45.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.599][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:45.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:45.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.603][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:45.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:45.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:45.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:45.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.624][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.628][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.632][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:45.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:45.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.653][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.657][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.662][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.665][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.669][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:45.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.673][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.677][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.681][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:45.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.685][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:45.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:45.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.689][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:45.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:45.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.693][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:45.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:45.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.697][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 21:27:45.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.713][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 21:27:45.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:45.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.735][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.743][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:45.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:45.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.747][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:45.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:45.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.755][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:45.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:45.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:45.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:45.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:45.783][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-17 21:27:45.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-17 21:27:45.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-17 21:27:45.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-17 21:27:45.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-17 21:27:45.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-17 21:27:45.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-17 21:27:45.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 21:27:45.803][biodb::testThat]
biodb.INFO [2024-07-17 21:27:45.804][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-07-17 21:27:45.805][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:45.806][biodb::testThat]
biodb.TRACE[2024-07-17 21:27:45.809][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.810][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.812][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:45.813][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-07-17 21:27:45.840][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.844][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:45.862][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-07-17 21:27:45.864][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-07-17 21:27:45.865][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-17 21:27:45.866][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-17 21:27:45.867][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:45.869][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:45.870][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 21:27:45.871][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:45.872][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 21:27:45.874][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 21:27:45.875][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 21:27:45.876][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 21:27:45.877][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 21:27:45.878][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 21:27:45.879][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 21:27:45.881][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:45.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:45.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:45.897][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 21:27:45.898][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 21:27:45.899][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-07-17 21:27:45.911][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:45.912][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:45.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.914][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:45.915][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-07-17 21:27:45.927][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:45.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:45.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.931][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:45.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:45.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:45.935][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:45.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:45.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:45.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:45.942][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[2024-07-17 21:27:46.001][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-17 21:27:46.003][private$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[2024-07-17 21:27:46.004][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-07-17 21:27:46.018][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:46.019][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:46.021][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 21:27:46.022][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:46.023][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 21:27:46.039][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 21:27:46.040][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 21:27:46.041][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 21:27:46.042][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 21:27:46.043][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 21:27:46.044][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 21:27:46.046][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:46.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:46.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.050][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:46.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:46.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.054][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:46.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:46.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.058][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:46.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:46.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:46.062][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 21:27:46.062][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 21:27:46.063][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-07-17 21:27:46.075][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.076][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.078][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:46.079][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-07-17 21:27:46.090][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.094][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.098][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:46.105][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-07-17 21:27:46.106][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-07-17 21:27:46.107][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-07-17 21:27:46.108][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-07-17 21:27:46.110][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:46.111][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:46.113][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 21:27:46.120][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:46.121][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 21:27:46.122][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 21:27:46.123][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 21:27:46.124][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 21:27:46.125][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 21:27:46.126][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 21:27:46.127][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 21:27:46.129][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.132][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.136][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.140][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:46.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:46.144][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 21:27:46.145][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 21:27:46.146][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-07-17 21:27:46.168][biodb::testThat]
biodb.INFO [2024-07-17 21:27:46.169][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-07-17 21:27:46.170][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:46.171][biodb::testThat]
biodb.TRACE[2024-07-17 21:27:46.181][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:46.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:46.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.185][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:46.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:46.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.189][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:46.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:46.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:46.204][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-07-17 21:27:46.205][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-17 21:27:46.206][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-17 21:27:46.207][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:46.209][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:46.210][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 21:27:46.212][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:46.213][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 21:27:46.214][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 21:27:46.215][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 21:27:46.216][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 21:27:46.217][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 21:27:46.218][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 21:27:46.219][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 21:27:46.220][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:46.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:46.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:46.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:46.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:46.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:46.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:46.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:46.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:46.236][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 21:27:46.237][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-07-17 21:27:46.251][biodb::testThat]
biodb.INFO [2024-07-17 21:27:46.252][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-07-17 21:27:46.253][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:46.254][biodb::testThat]
biodb.TRACE[2024-07-17 21:27:46.282][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 21:27:46.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 21:27:46.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.286][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 21:27:46.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 21:27:46.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.290][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-17 21:27:46.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-17 21:27:46.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.294][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-17 21:27:46.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-17 21:27:46.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.340][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 21:27:46.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 21:27:46.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.344][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 21:27:46.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 21:27:46.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.348][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-17 21:27:46.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-17 21:27:46.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:46.352][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-17 21:27:46.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-17 21:27:46.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:46.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 21:27:46.362][biodb::testThat]
biodb.INFO [2024-07-17 21:27:46.363][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-07-17 21:27:46.364][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:46.365][biodb::testThat]
biodb.INFO [2024-07-17 21:27:46.372][biodb::testThat]
biodb.INFO [2024-07-17 21:27:46.373][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-07-17 21:27:46.374][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:46.375][biodb::testThat]
biodb.INFO [2024-07-17 21:27:46.383][biodb::testThat]
biodb.INFO [2024-07-17 21:27:46.384][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-07-17 21:27:46.385][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:46.386][biodb::testThat]
biodb.DEBUG[2024-07-17 21:27:46.389][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-07-17 21:27:47.638][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-07-17 21:27:47.676][biodb::testThat]
biodb.INFO [2024-07-17 21:27:47.678][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-07-17 21:27:47.681][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:47.683][biodb::testThat]
biodb.DEBUG[2024-07-17 21:27:47.955][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-07-17 21:27:48.002][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:48.005][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:48.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.009][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.011][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:48.014][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:48.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.017][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.019][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:48.021][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:48.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.025][ef$get] fields variable is a list.
biodb.INFO [2024-07-17 21:27:48.027][biodb::testThat]
biodb.INFO [2024-07-17 21:27:48.029][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-07-17 21:27:48.030][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:48.032][biodb::testThat]
biodb.DEBUG[2024-07-17 21:27:48.034][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-07-17 21:27:48.088][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 21:27:48.090][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:48.091][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 21:27:48.114][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-07-17 21:27:48.116][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 21:27:48.117][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 21:27:48.118][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 21:27:48.119][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:48.121][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 21:27:48.122][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 21:27:48.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:48.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.133][FUN] Functions in observer BiodbConfig: [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[2024-07-17 21:27:48.134][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:48.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:48.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.138][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:48.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:48.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:48.166][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-07-17 21:27:48.167][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-07-17 21:27:48.183][biodb::testThat]
biodb.INFO [2024-07-17 21:27:48.185][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-07-17 21:27:48.186][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:48.186][biodb::testThat]
biodb.DEBUG[2024-07-17 21:27:48.194][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-07-17 21:27:48.196][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-07-17 21:27:48.197][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 21:27:48.198][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:48.200][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 21:27:48.202][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-07-17 21:27:48.203][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 21:27:48.204][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 21:27:48.205][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 21:27:48.206][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:48.208][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 21:27:48.209][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 21:27:48.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:48.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.255][FUN] Functions in observer BiodbConfig: [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[2024-07-17 21:27:48.257][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:48.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:48.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.261][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:48.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:48.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:48.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:48.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:48.296][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-07-17 21:27:48.297][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-07-17 21:27:48.299][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-07-17 21:27:48.317][biodb::testThat]
biodb.INFO [2024-07-17 21:27:48.318][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-07-17 21:27:48.320][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:48.321][biodb::testThat]
biodb.INFO [2024-07-17 21:27:48.347][biodb::testThat]
biodb.INFO [2024-07-17 21:27:48.348][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-07-17 21:27:48.349][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:48.350][biodb::testThat]
biodb.DEBUG[2024-07-17 21:27:48.353][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:48.355][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:48.356][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 21:27:48.357][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:48.358][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 21:27:48.360][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 21:27:48.361][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 21:27:48.362][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 21:27:48.363][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-07-17 21:27:48.371][biodb::testThat]
biodb.INFO [2024-07-17 21:27:48.372][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-07-17 21:27:48.373][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:48.374][biodb::testThat]
biodb.DEBUG[2024-07-17 21:27:48.377][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:48.378][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:48.380][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 21:27:48.398][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:48.400][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 21:27:48.402][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 21:27:48.403][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 21:27:48.404][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 21:27:48.405][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-07-17 21:27:48.414][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:48.415][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:48.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.417][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.418][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:48.419][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:48.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.421][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:48.422][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:48.423][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:48.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:48.425][ef$get] fields variable is a list.
biodb.INFO [2024-07-17 21:27:48.426][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-17 21:27:48.427][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-17 21:27:48.436][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-17 21:27:48.437][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-17 21:27:48.438][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.439][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.441][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.442][FUN] Functions in observer BiodbConfig: [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 [2024-07-17 21:27:48.445][biodb::testContext]
biodb.INFO [2024-07-17 21:27:48.446][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 21:27:48.447][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-07-17 21:27:48.448][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 21:27:48.449][biodb::testContext]
biodb.INFO [2024-07-17 21:27:48.453][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-17 21:27:48.454][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-07-17 21:27:48.458][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 21:27:48.459][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-17 21:27:48.460][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-17 21:27:48.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.463][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-17 21:27:48.464][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-17 21:27:48.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.467][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[2024-07-17 21:27:48.467][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-17 21:27:48.468][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-17 21:27:48.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.472][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-17 21:27:48.473][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-17 21:27:48.474][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-17 21:27:48.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.476][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[2024-07-17 21:27:48.477][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-17 21:27:48.478][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-17 21:27:48.479][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-17 21:27:48.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.482][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-17 21:27:48.483][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-17 21:27:48.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.486][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-17 21:27:48.487][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-17 21:27:48.488][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-17 21:27:48.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.492][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-17 21:27:48.493][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-17 21:27:48.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.496][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-17 21:27:48.497][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-17 21:27:48.498][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-17 21:27:48.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.501][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-17 21:27:48.502][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-17 21:27:48.508][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-17 21:27:48.509][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-17 21:27:48.510][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-17 21:27:48.511][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-17 21:27:48.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.514][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[2024-07-17 21:27:48.514][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-17 21:27:48.515][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-17 21:27:48.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.519][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-17 21:27:48.520][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-17 21:27:48.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.523][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-17 21:27:48.524][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-17 21:27:48.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.527][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-17 21:27:48.528][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-17 21:27:48.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.531][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-17 21:27:48.532][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-17 21:27:48.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.536][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-17 21:27:48.537][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-17 21:27:48.540][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-17 21:27:48.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.544][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-17 21:27:48.545][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-17 21:27:48.546][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-17 21:27:48.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.549][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-17 21:27:48.551][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.552][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-17 21:27:48.553][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.554][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:48.555][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.556][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.556][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.557][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.558][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 21:27:48.559][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:48.560][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.561][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-17 21:27:48.562][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:48.563][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.564][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.565][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 21:27:48.565][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 21:27:48.565][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 21:27:48.565][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 21:27:48.565][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 21:27:48.566][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:48.566][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:48.567][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:48.568][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:48.569][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:48.570][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:48.571][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.572][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.573][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:48.573][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:48.574][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.575][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.576][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-17 21:27:48.578][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.579][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 21:27:48.580][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.581][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:48.582][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.583][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.584][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.585][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.586][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 21:27:48.586][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:48.587][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.588][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-17 21:27:48.589][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:48.590][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.591][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.592][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 21:27:48.592][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 21:27:48.592][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 21:27:48.592][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 21:27:48.592][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 21:27:48.593][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:48.594][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:48.595][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:48.596][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:48.596][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:48.597][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:48.598][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.599][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.600][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:48.601][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:48.602][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.603][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.604][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-17 21:27:48.610][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.611][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-17 21:27:48.612][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.613][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:48.614][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.615][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.616][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.617][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.618][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 21:27:48.619][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:48.620][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.621][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-17 21:27:48.621][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:48.622][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.623][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.624][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.625][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:48.626][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:48.627][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:48.628][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:48.628][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:48.629][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:48.630][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.631][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.632][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:48.633][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:48.634][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.635][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.636][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-17 21:27:48.637][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.638][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 21:27:48.639][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.640][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:48.641][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.642][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.643][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.644][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.644][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 21:27:48.645][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:48.646][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.647][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-17 21:27:48.648][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:48.649][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.650][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.651][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.652][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:48.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:48.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:48.654][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:48.655][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:48.656][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:48.657][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.658][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.659][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:48.660][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:48.660][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.661][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.663][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 21:27:48.663][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.681][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[2024-07-17 21:27:48.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.693][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[2024-07-17 21:27:48.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.734][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[2024-07-17 21:27:48.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.739][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-17 21:27:48.741][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-17 21:27:48.742][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-17 21:27:48.744][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-17 21:27:48.745][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 21:27:48.746][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 21:27:48.747][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-17 21:27:48.749][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-17 21:27:48.750][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-17 21:27:48.751][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 21:27:48.753][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 21:27:48.754][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-17 21:27:48.755][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-17 21:27:48.756][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-17 21:27:48.758][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-17 21:27:48.759][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 21:27:48.760][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-17 21:27:48.762][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-17 21:27:48.763][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 21:27:48.764][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-17 21:27:48.765][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-17 21:27:48.767][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-17 21:27:48.768][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-17 21:27:48.769][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-17 21:27:48.771][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-17 21:27:48.772][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-17 21:27:48.773][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-17 21:27:48.774][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-17 21:27:48.776][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-17 21:27:48.777][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-17 21:27:48.778][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-17 21:27:48.780][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-17 21:27:48.781][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-17 21:27:48.782][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-17 21:27:48.783][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-17 21:27:48.785][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-17 21:27:48.786][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-17 21:27:48.787][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-17 21:27:48.789][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-17 21:27:48.790][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-17 21:27:48.791][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-17 21:27:48.793][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-17 21:27:48.794][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-17 21:27:48.795][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-17 21:27:48.796][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-17 21:27:48.798][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-17 21:27:48.804][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-17 21:27:48.805][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-17 21:27:48.807][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-17 21:27:48.808][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-17 21:27:48.809][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-17 21:27:48.810][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-17 21:27:48.812][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-17 21:27:48.813][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-17 21:27:48.814][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-17 21:27:48.815][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-17 21:27:48.817][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-17 21:27:48.818][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-17 21:27:48.819][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-17 21:27:48.821][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-17 21:27:48.822][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-17 21:27:48.823][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-17 21:27:48.824][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-17 21:27:48.826][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-17 21:27:48.827][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-17 21:27:48.828][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-17 21:27:48.829][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 21:27:48.831][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 21:27:48.832][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-17 21:27:48.833][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-17 21:27:48.835][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-17 21:27:48.836][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-17 21:27:48.837][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-17 21:27:48.838][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-17 21:27:48.840][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-17 21:27:48.841][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-17 21:27:48.842][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-17 21:27:48.843][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-17 21:27:48.845][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-17 21:27:48.846][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-17 21:27:48.847][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-17 21:27:48.849][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-17 21:27:48.850][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-17 21:27:48.851][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-17 21:27:48.853][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-17 21:27:48.854][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 21:27:48.854][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.856][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.913][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[2024-07-17 21:27:48.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.919][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[2024-07-17 21:27:48.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.925][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[2024-07-17 21:27:48.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:48.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:48.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:48.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:48.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:48.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:48.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:48.960][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-17 21:27:48.962][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:48.963][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.964][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.965][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.966][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:48.967][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.968][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-17 21:27:48.969][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.970][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.971][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-17 21:27:48.972][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:48.973][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.974][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-17 21:27:48.975][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-17 21:27:48.976][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-17 21:27:48.977][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:48.978][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 21:27:48.978][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-17 21:27:48.978][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-17 21:27:48.979][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-17 21:27:48.980][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:48.981][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:48.982][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:48.983][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:48.983][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:48.984][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:48.985][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 21:27:48.985][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-17 21:27:48.986][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:48.987][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:48.988][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:48.989][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:48.990][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-17 21:27:48.991][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 21:27:48.997][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 21:27:48.999][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 21:27:49.000][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 21:27:49.004][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:49.004][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-17 21:27:49.006][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:49.007][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 21:27:49.008][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:49.009][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:49.010][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-17 21:27:49.011][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-17 21:27:49.012][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 21:27:49.012][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-17 21:27:49.013][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:49.014][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:49.014][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-17 21:27:49.015][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-17 21:27:49.016][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:49.018][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 21:27:49.019][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:49.020][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:49.021][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 21:27:49.022][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:49.023][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-17 21:27:49.024][biodb::testThat]
biodb.INFO [2024-07-17 21:27:49.025][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-07-17 21:27:49.026][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:49.027][biodb::testThat]
biodb.DEBUG[2024-07-17 21:27:49.030][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:49.032][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:49.033][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 21:27:49.034][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:49.035][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 21:27:49.036][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 21:27:49.037][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 21:27:49.038][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 21:27:49.039][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 21:27:49.042][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-07-17 21:27:49.046][biodb::testThat]
biodb.INFO [2024-07-17 21:27:49.047][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-07-17 21:27:49.048][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:49.049][biodb::testThat]
biodb.DEBUG[2024-07-17 21:27:49.051][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-07-17 21:27:49.052][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 21:27:49.053][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:49.054][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 21:27:49.056][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-07-17 21:27:49.057][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 21:27:49.059][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-17 21:27:49.060][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 21:27:49.061][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 21:27:49.062][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 21:27:49.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:49.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:49.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:49.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.072][FUN] Functions in observer BiodbConfig: [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[2024-07-17 21:27:49.076][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.077][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.079][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.084][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:49.085][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:49.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.086][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.088][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:49.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:49.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.091][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:49.092][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:49.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.094][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.095][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:49.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:49.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.104][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:49.105][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:49.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.107][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.109][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:49.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:49.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.112][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:49.113][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:49.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.115][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:49.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:49.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.120][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:49.121][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:49.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.123][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:49.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:49.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.128][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:49.129][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:49.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.130][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.132][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:49.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:49.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.135][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:49.136][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:49.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.138][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.139][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:49.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:49.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.143][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:49.144][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:49.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.146][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.147][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:49.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:49.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.151][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:49.152][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:49.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.154][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.155][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:49.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:49.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.159][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:49.160][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:49.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.161][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.162][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:49.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:49.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.166][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:49.167][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:49.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.169][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:49.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:49.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.174][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.175][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.177][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.182][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:49.183][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:49.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:49.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:49.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.190][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:49.191][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:49.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.192][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:49.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:49.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.197][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:49.204][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:49.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.206][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.207][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:49.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:49.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.211][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:49.212][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:49.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.214][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.215][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:49.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:49.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.219][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 21:27:49.220][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:49.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.223][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 21:27:49.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:49.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.238][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:49.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:49.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.242][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:49.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:49.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.246][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:49.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:49.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.249][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:49.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:49.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.253][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:49.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:49.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.257][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:49.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:49.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:49.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:49.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:49.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:49.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:49.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:49.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:49.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:49.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:49.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:49.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:49.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:49.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.283][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:49.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:49.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.286][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:49.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:49.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.290][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:49.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:49.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.294][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:49.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:49.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.297][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:49.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:49.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.307][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:49.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:49.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.310][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:49.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:49.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.314][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:49.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:49.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.318][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:49.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:49.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.322][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:49.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:49.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.325][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:49.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:49.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.329][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:49.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:49.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.333][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:49.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:49.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.337][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:49.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:49.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.340][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:49.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:49.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:49.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:49.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:49.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:49.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:49.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:49.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.355][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.366][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:49.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:49.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.370][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:49.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:49.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.374][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:49.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:49.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:49.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:49.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:49.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:49.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:49.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:49.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.389][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:49.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:49.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.393][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:49.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:49.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:49.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:49.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.407][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:49.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:49.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.411][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:49.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:49.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.415][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:49.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:49.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.419][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:49.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:49.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.423][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:49.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:49.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.426][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:49.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:49.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.430][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:49.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:49.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.434][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:49.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:49.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.438][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:49.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:49.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.441][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 21:27:49.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.453][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.456][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 21:27:49.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:49.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:49.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:49.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:49.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:49.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.469][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:49.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:49.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:49.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:49.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:49.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:49.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.480][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:49.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:49.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.484][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:49.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:49.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.491][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:49.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:49.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:49.524][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-07-17 21:27:49.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:49.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:49.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:49.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:49.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 21:27:49.541][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-17 21:27:49.542][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-17 21:27:49.543][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-17 21:27:49.544][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-17 21:27:49.545][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:49.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:49.546][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.548][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-17 21:27:49.552][biodb::testContext]
biodb.INFO [2024-07-17 21:27:49.553][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 21:27:49.554][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-07-17 21:27:49.555][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 21:27:49.556][biodb::testContext]
biodb.INFO [2024-07-17 21:27:49.559][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-17 21:27:49.561][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-07-17 21:27:49.564][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 21:27:49.565][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-17 21:27:49.566][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-17 21:27:49.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.570][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-17 21:27:49.571][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-17 21:27:49.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.574][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-17 21:27:49.575][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-17 21:27:49.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.578][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-17 21:27:49.579][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-17 21:27:49.580][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-17 21:27:49.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.584][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-17 21:27:49.585][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-17 21:27:49.586][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-17 21:27:49.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.589][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-17 21:27:49.590][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-17 21:27:49.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.593][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-17 21:27:49.594][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-17 21:27:49.595][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-17 21:27:49.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.599][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-17 21:27:49.604][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-17 21:27:49.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.608][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-17 21:27:49.628][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-17 21:27:49.630][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-17 21:27:49.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.634][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-17 21:27:49.635][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-17 21:27:49.636][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-17 21:27:49.637][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-17 21:27:49.638][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-17 21:27:49.639][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-17 21:27:49.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.643][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-17 21:27:49.644][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-17 21:27:49.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.648][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-17 21:27:49.649][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-17 21:27:49.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.652][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-17 21:27:49.653][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-17 21:27:49.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.656][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[2024-07-17 21:27:49.657][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-17 21:27:49.658][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-17 21:27:49.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.662][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-17 21:27:49.663][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-17 21:27:49.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.666][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-17 21:27:49.667][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-17 21:27:49.672][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-17 21:27:49.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.675][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-17 21:27:49.676][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-17 21:27:49.677][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-17 21:27:49.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.681][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-17 21:27:49.683][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.684][self$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[2024-07-17 21:27:49.685][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.686][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:49.687][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.688][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.689][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.690][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.691][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 21:27:49.692][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:49.693][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.694][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-17 21:27:49.695][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:49.696][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.697][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.698][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 21:27:49.698][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 21:27:49.698][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 21:27:49.698][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 21:27:49.698][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 21:27:49.699][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:49.700][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:49.701][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:49.702][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:49.703][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:49.703][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:49.704][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.705][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.706][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:49.707][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:49.708][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.709][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.710][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-17 21:27:49.712][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.713][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 21:27:49.714][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.715][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:49.716][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.717][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.718][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.719][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.720][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 21:27:49.721][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:49.722][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.723][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-17 21:27:49.724][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:49.725][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.726][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.727][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 21:27:49.727][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 21:27:49.727][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 21:27:49.727][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 21:27:49.727][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 21:27:49.728][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:49.729][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:49.730][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:49.735][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:49.736][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:49.737][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:49.738][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.739][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.740][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:49.741][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:49.741][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.742][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.743][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-17 21:27:49.745][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.746][self$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[2024-07-17 21:27:49.747][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.748][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:49.749][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.750][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.751][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.752][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.752][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 21:27:49.753][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:49.754][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.755][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-17 21:27:49.756][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:49.757][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.758][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.759][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.760][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:49.761][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:49.762][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:49.763][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:49.763][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:49.764][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:49.765][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.766][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.767][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:49.768][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:49.769][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.770][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.771][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-17 21:27:49.772][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.773][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 21:27:49.774][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.775][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:49.776][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.777][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.778][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.779][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.780][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 21:27:49.781][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:49.782][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.783][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-17 21:27:49.784][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:49.785][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.786][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:49.787][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.787][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 21:27:49.788][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:49.789][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:49.790][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:49.791][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:49.792][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:49.793][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:49.794][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.795][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:49.795][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:49.796][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:49.797][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:49.799][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 21:27:49.799][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.840][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[2024-07-17 21:27:49.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.879][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-17 21:27:49.880][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-17 21:27:49.881][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-17 21:27:49.883][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-17 21:27:49.884][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 21:27:49.885][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 21:27:49.886][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-17 21:27:49.888][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-17 21:27:49.889][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-17 21:27:49.890][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 21:27:49.892][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 21:27:49.893][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-17 21:27:49.894][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-17 21:27:49.895][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-17 21:27:49.897][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-17 21:27:49.898][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 21:27:49.899][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-17 21:27:49.901][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-17 21:27:49.902][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 21:27:49.903][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-17 21:27:49.904][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-17 21:27:49.906][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-17 21:27:49.907][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-17 21:27:49.908][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-17 21:27:49.910][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-17 21:27:49.911][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-17 21:27:49.912][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-17 21:27:49.913][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-17 21:27:49.915][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-17 21:27:49.916][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-17 21:27:49.917][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-17 21:27:49.919][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-17 21:27:49.920][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-17 21:27:49.921][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-17 21:27:49.928][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-17 21:27:49.929][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-17 21:27:49.931][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-17 21:27:49.932][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-17 21:27:49.933][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-17 21:27:49.934][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-17 21:27:49.936][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-17 21:27:49.937][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-17 21:27:49.938][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-17 21:27:49.939][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-17 21:27:49.941][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-17 21:27:49.942][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-17 21:27:49.943][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-17 21:27:49.945][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-17 21:27:49.946][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-17 21:27:49.947][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-17 21:27:49.949][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-17 21:27:49.950][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-17 21:27:49.951][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-17 21:27:49.952][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-17 21:27:49.954][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-17 21:27:49.955][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-17 21:27:49.956][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-17 21:27:49.957][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-17 21:27:49.959][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-17 21:27:49.960][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-17 21:27:49.961][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-17 21:27:49.963][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-17 21:27:49.964][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-17 21:27:49.965][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-17 21:27:49.967][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-17 21:27:49.968][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-17 21:27:49.969][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 21:27:49.970][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 21:27:49.972][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-17 21:27:49.973][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-17 21:27:49.974][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-17 21:27:49.976][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-17 21:27:49.977][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-17 21:27:49.978][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-17 21:27:49.980][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-17 21:27:49.981][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-17 21:27:49.982][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-17 21:27:49.984][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-17 21:27:49.985][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-17 21:27:49.986][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-17 21:27:49.987][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-17 21:27:49.989][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-17 21:27:49.990][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-17 21:27:49.991][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-17 21:27:49.993][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-17 21:27:49.994][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 21:27:49.995][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:49.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:49.996][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:49.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:49.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:49.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.073][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[2024-07-17 21:27:50.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 21:27:50.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:50.104][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-17 21:27:50.105][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:50.107][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:50.108][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-17 21:27:50.109][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:50.110][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 21:27:50.111][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:50.116][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-17 21:27:50.117][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:50.118][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 21:27:50.119][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-17 21:27:50.120][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 21:27:50.121][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:50.122][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-17 21:27:50.123][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-17 21:27:50.124][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-17 21:27:50.125][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-17 21:27:50.126][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 21:27:50.126][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-17 21:27:50.126][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-17 21:27:50.127][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-17 21:27:50.128][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:50.128][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:50.129][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 21:27:50.130][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 21:27:50.131][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 21:27:50.132][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 21:27:50.133][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 21:27:50.133][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-17 21:27:50.134][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:50.135][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:50.135][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-17 21:27:50.136][self$setPropertyValue]
biodb.DEBUG[2024-07-17 21:27:50.138][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-17 21:27:50.139][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 21:27:50.141][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 21:27:50.142][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 21:27:50.143][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 21:27:50.146][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:50.147][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-17 21:27:50.148][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:50.150][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 21:27:50.151][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:50.152][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:50.153][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-17 21:27:50.154][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-17 21:27:50.155][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-17 21:27:50.155][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-17 21:27:50.156][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 21:27:50.157][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 21:27:50.158][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-17 21:27:50.158][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-17 21:27:50.159][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-17 21:27:50.161][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 21:27:50.162][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:50.163][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:50.164][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-17 21:27:50.165][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 21:27:50.166][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-17 21:27:50.167][biodb::testThat]
biodb.INFO [2024-07-17 21:27:50.168][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-07-17 21:27:50.169][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 21:27:50.170][biodb::testThat]
biodb.DEBUG[2024-07-17 21:27:50.172][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-17 21:27:50.173][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-07-17 21:27:50.174][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-07-17 21:27:50.177][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:50.179][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:50.180][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 21:27:50.181][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:50.182][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 21:27:50.183][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 21:27:50.184][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 21:27:50.185][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 21:27:50.186][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 21:27:50.187][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 21:27:50.188][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-07-17 21:27:50.190][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-07-17 21:27:50.191][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 21:27:50.193][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:50.194][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 21:27:50.196][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-07-17 21:27:50.197][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 21:27:50.199][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-07-17 21:27:50.200][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 21:27:50.201][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 21:27:50.202][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 21:27:50.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:50.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 21:27:50.224][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.225][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.227][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.232][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.233][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.235][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.236][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.240][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.241][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.243][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.244][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.248][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.249][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.251][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.252][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.256][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.257][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.259][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.264][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.265][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.267][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.272][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.273][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.275][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.276][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.280][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.281][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.283][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.284][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.288][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.289][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.291][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.292][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.296][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.297][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.299][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.300][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.304][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:50.305][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:50.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.307][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:50.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:50.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.312][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:50.313][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:50.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:50.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:50.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.325][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.327][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.328][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.334][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.336][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.341][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.344][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.345][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.349][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.350][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.352][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.353][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.356][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:50.357][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:50.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.359][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.360][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:50.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:50.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.364][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 21:27:50.365][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.367][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.368][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 21:27:50.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.383][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.387][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.390][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.394][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.398][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.401][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.438][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.442][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.446][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.449][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.453][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.457][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.460][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.464][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.468][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.471][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.475][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.479][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:50.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:50.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.486][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:50.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:50.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.489][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:50.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:50.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:50.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:50.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:50.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:50.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:50.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:50.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.515][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.524][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.528][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.543][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.550][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.554][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.557][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.561][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.565][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.568][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.572][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.576][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:50.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:50.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.579][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:50.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:50.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.583][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:50.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:50.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.587][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 21:27:50.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.602][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 21:27:50.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.606][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.610][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.614][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.627][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.631][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:50.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:50.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.634][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:50.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:50.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.642][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:50.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:50.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:50.667][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-17 21:27:50.668][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.672][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.676][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.679][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:50.683][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 21:27:50.684][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 21:27:50.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:50.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.693][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[2024-07-17 21:27:50.694][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-07-17 21:27:50.695][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-17 21:27:50.697][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:50.698][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-17 21:27:50.700][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-07-17 21:27:50.701][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 21:27:50.703][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-17 21:27:50.704][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 21:27:50.705][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-17 21:27:50.706][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-17 21:27:50.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:50.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:50.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:50.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:50.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:50.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:50.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 21:27:50.724][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.725][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.727][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.732][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.733][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.735][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.736][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:50.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.740][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.741][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.743][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.744][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.748][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.749][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.751][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.752][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.756][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.758][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.764][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.765][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.767][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.772][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.773][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.775][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.776][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:50.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.780][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.781][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.782][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.784][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:50.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.788][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.789][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.790][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.792][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.795][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.796][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.798][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.799][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.803][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:50.804][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:50.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.806][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:50.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:50.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.811][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:50.812][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:50.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.814][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:50.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:50.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.819][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.820][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.827][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:50.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.833][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.834][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.836][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:50.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.841][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.842][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.844][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.845][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:50.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:50.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.849][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.850][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.852][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.853][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.856][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:50.857][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:50.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.859][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.861][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:50.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:50.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.864][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 21:27:50.865][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.867][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.868][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-17 21:27:50.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:50.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:50.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.883][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.887][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.891][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 21:27:50.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.894][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.898][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.902][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-17 21:27:50.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 21:27:50.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-17 21:27:50.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.940][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-17 21:27:50.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.948][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.951][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-17 21:27:50.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.955][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.959][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.962][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-17 21:27:50.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.966][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.970][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.973][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:50.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:50.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.977][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:50.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:50.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.981][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:50.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:50.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.984][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 21:27:50.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 21:27:50.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:50.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:50.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:50.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:50.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 21:27:50.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 21:27:50.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:50.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:50.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.003][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.010][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:51.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:51.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.014][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:51.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:51.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.017][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:51.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 21:27:51.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:51.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:51.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:51.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:51.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:51.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 21:27:51.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:51.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:51.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:51.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:51.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:51.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:51.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.048][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:51.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:51.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.052][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:51.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:51.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.056][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:51.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-17 21:27:51.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.060][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:51.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:51.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.063][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:51.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:51.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.067][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:51.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-17 21:27:51.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.070][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:51.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:51.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.074][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:51.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:51.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.078][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 21:27:51.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 21:27:51.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.082][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 21:27:51.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.089][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.096][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-17 21:27:51.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 21:27:51.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.101][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:51.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:51.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:51.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:51.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:51.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:51.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.112][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:51.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:51.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 21:27:51.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 21:27:51.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.124][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:51.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:51.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.129][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:51.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:51.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:51.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:51.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.136][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:51.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-17 21:27:51.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:51.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:51.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:51.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:51.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:51.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:51.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:51.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:51.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:51.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:51.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 21:27:51.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 21:27:51.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:51.162][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-07-17 21:27:51.163][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.167][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.170][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.174][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:51.178][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 21:27:51.179][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-07-17 21:27:51.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:51.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:51.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:51.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:51.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:51.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:51.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 21:27:51.194][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-17 21:27:51.195][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-07-17 21:27:51.196][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-07-17 21:27:51.198][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:51.200][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:51.201][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 21:27:51.202][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:51.203][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 21:27:51.205][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 21:27:51.206][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 21:27:51.206][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 21:27:51.207][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 21:27:51.208][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 21:27:51.209][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 21:27:51.211][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.215][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.218][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.228][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.233][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.236][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.240][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:51.244][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 21:27:51.245][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 21:27:51.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:51.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:51.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:51.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:51.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:51.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:51.254][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.TRACE[2024-07-17 21:27:51.255][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.259][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.263][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.267][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.271][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.275][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.279][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:51.283][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-07-17 21:27:51.284][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 21:27:51.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:51.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:51.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:51.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:51.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:51.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:51.293][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[2024-07-17 21:27:51.298][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-17 21:27:51.299][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-07-17 21:27:51.302][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-07-17 21:27:51.305][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:51.307][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:51.308][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-17 21:27:51.310][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-17 21:27:51.311][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-17 21:27:51.312][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-17 21:27:51.313][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-17 21:27:51.314][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-17 21:27:51.315][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-17 21:27:51.316][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-17 21:27:51.317][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-17 21:27:51.320][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.324][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.328][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.351][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.356][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.361][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.365][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:51.369][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-07-17 21:27:51.370][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-07-17 21:27:51.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:51.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:51.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:51.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:51.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:51.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:51.380][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.TRACE[2024-07-17 21:27:51.381][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.385][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.389][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.393][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.397][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.401][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 21:27:51.405][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-17 21:27:51.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-17 21:27:51.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 21:27:51.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 21:27:51.408][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-17 21:27:51.409][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-17 21:27:51.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 21:27:51.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:51.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:51.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:51.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:51.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:51.419][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.INFO [2024-07-17 21:27:51.426][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-17 21:27:51.427][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-17 21:27:51.428][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-17 21:27:51.429][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-17 21:27:51.430][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 21:27:51.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 21:27:51.431][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 21:27:51.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 21:27:51.433][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 21:27:51.434][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
8.943 0.290 10.487