Pierrick Roger
| Snapshot Date: 2024-07-07 14:00 -0400 (Sun, 07 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 2024-07-08 11:44 -0400 (Mon, 08 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" | 4643 |
| palomino6 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4414 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4442 |
| kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4391 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 3833 |
| 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 199/2243 | 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 | | ||||||||
| palomino6 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | ERROR | OK | |||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | NA | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the biodbHmdb package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: biodbHmdb |
| Version: 1.11.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbHmdb_1.11.0.tar.gz |
| StartedAt: 2024-07-06 03:17:02 -0000 (Sat, 06 Jul 2024) |
| EndedAt: 2024-07-06 03:18:17 -0000 (Sat, 06 Jul 2024) |
| EllapsedTime: 75.1 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbHmdb_1.11.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
gcc (GCC) 12.2.1 20220819 (openEuler 12.2.1-14)
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.11.0’
* 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++ (GCC) 10.3.1’
* checking installed package size ... NOTE
installed size is 9.2Mb
sub-directories of 1Mb or more:
libs 8.6Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 WARNINGs, 3 NOTEs
See
‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 10.3.1’
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor ‘EntryMaker::EntryMaker()’:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
23 | TagDetector accession_tag;
| ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
22 | bool closed;
| ^~~~~~
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
5 | EntryMaker::EntryMaker() :
| ^~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.4.1/lib -L/usr/local/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -L/home/biocbuild/R/R-4.4.1/lib -lR
installing to /home/biocbuild/R/R-4.4.1/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: aarch64-unknown-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-07-06 03:17:57.180][biodb::testContext]
biodb.INFO [2024-07-06 03:17:57.183][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-06 03:17:57.184][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-07-06 03:17:57.185][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-06 03:17:57.187][biodb::testContext]
biodb.INFO [2024-07-06 03:17:57.189][biodb::testThat]
biodb.INFO [2024-07-06 03:17:57.190][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-07-06 03:17:57.192][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:17:57.193][biodb::testThat]
biodb.INFO [2024-07-06 03:17:57.317][biodb::testContext]
biodb.INFO [2024-07-06 03:17:57.319][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-06 03:17:57.320][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-07-06 03:17:57.321][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-06 03:17:57.322][biodb::testContext]
biodb.INFO [2024-07-06 03:17:57.332][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-06 03:17:57.344][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-07-06 03:17:57.353][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 03:17:57.355][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-06 03:17:57.356][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-06 03:17:57.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.361][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-06 03:17:57.387][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-06 03:17:57.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.392][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-06 03:17:57.393][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-06 03:17:57.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.398][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-06 03:17:57.399][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-06 03:17:57.401][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-06 03:17:57.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.405][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-06 03:17:57.407][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-06 03:17:57.408][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-06 03:17:57.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.413][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-06 03:17:57.415][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-06 03:17:57.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.420][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-06 03:17:57.421][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-06 03:17:57.422][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-06 03:17:57.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.427][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-06 03:17:57.429][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-06 03:17:57.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.434][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-06 03:17:57.435][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-06 03:17:57.436][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-06 03:17:57.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.441][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-06 03:17:57.443][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-06 03:17:57.444][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-06 03:17:57.445][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-06 03:17:57.447][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-06 03:17:57.448][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-06 03:17:57.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.453][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-06 03:17:57.454][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-06 03:17:57.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.459][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-06 03:17:57.460][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-06 03:17:57.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.465][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-06 03:17:57.467][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-06 03:17:57.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.472][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-06 03:17:57.473][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-06 03:17:57.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.478][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-06 03:17:57.479][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-06 03:17:57.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.484][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-06 03:17:57.486][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-06 03:17:57.491][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-06 03:17:57.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.496][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-06 03:17:57.497][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-06 03:17:57.498][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-06 03:17:57.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.506][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-06 03:17:57.552][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.575][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-06 03:17:57.576][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.586][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:17:57.587][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.589][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.590][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.591][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.593][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-06 03:17:57.594][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:17:57.595][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.596][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-06 03:17:57.598][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:17:57.599][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.600][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.602][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 03:17:57.602][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-06 03:17:57.602][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-06 03:17:57.602][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-06 03:17:57.602][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-06 03:17:57.603][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:17:57.604][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:17:57.605][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:17:57.607][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:17:57.608][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:17:57.609][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:17:57.610][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.612][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.613][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:17:57.614][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:17:57.615][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.617][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.618][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-06 03:17:57.620][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.622][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-06 03:17:57.623][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.624][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:17:57.626][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.627][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.628][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.630][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.631][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-06 03:17:57.632][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:17:57.633][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.635][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-06 03:17:57.636][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:17:57.637][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.639][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.640][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 03:17:57.640][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-06 03:17:57.640][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-06 03:17:57.640][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-06 03:17:57.640][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-06 03:17:57.641][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:17:57.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:17:57.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:17:57.645][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:17:57.646][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:17:57.647][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:17:57.649][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.650][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.651][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:17:57.652][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:17:57.654][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.655][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.657][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-06 03:17:57.659][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.660][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-06 03:17:57.662][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.663][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:17:57.664][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.666][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.667][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.668][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.670][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-06 03:17:57.671][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:17:57.672][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.674][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-06 03:17:57.675][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:17:57.676][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.678][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.679][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.680][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:17:57.682][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:17:57.683][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:17:57.684][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:17:57.685][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:17:57.687][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:17:57.688][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.689][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.690][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:17:57.692][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:17:57.693][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.694][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.696][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-06 03:17:57.698][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.699][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-06 03:17:57.701][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.702][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:17:57.703][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.705][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.706][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.707][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.709][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-06 03:17:57.710][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:17:57.711][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.713][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-06 03:17:57.714][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:17:57.715][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.717][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:57.718][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.719][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:17:57.721][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:17:57.722][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:17:57.723][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:17:57.724][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:17:57.726][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:17:57.727][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:17:57.728][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.729][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:17:57.731][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:17:57.732][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:57.733][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:57.738][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 03:17:57.739][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.805][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[2024-07-06 03:17:57.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:57.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:57.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:57.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:57.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:57.849][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-06 03:17:57.854][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-06 03:17:57.856][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-06 03:17:57.858][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-06 03:17:57.860][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-06 03:17:57.862][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-06 03:17:57.864][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-06 03:17:57.866][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-06 03:17:57.868][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-06 03:17:57.870][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-06 03:17:57.871][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-06 03:17:57.873][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-06 03:17:57.875][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-06 03:17:57.877][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-06 03:17:57.879][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-06 03:17:57.881][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-06 03:17:57.883][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-06 03:17:57.885][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-06 03:17:57.886][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-06 03:17:57.888][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-06 03:17:57.890][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-06 03:17:57.892][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-06 03:17:57.894][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-06 03:17:57.896][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-06 03:17:57.898][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-06 03:17:57.900][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-06 03:17:57.901][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-06 03:17:57.903][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-06 03:17:57.905][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-06 03:17:57.907][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-06 03:17:57.909][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-06 03:17:57.911][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-06 03:17:57.913][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-06 03:17:57.915][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-06 03:17:57.916][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-06 03:17:57.918][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-06 03:17:57.920][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-06 03:17:57.922][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-06 03:17:57.924][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-06 03:17:57.926][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-06 03:17:57.928][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-06 03:17:57.930][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-06 03:17:57.931][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-06 03:17:57.933][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-06 03:17:57.935][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-06 03:17:57.937][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-06 03:17:57.939][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-06 03:17:57.941][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-06 03:17:57.943][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-06 03:17:57.945][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-06 03:17:57.947][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-06 03:17:57.948][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-06 03:17:57.950][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-06 03:17:57.952][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-06 03:17:57.954][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-06 03:17:57.956][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-06 03:17:57.958][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-06 03:17:57.960][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-06 03:17:57.962][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-06 03:17:57.963][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-06 03:17:57.965][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-06 03:17:57.967][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-06 03:17:57.969][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-06 03:17:57.971][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-06 03:17:57.973][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-06 03:17:57.975][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-06 03:17:57.977][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-06 03:17:57.979][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-06 03:17:57.980][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-06 03:17:57.982][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-06 03:17:57.984][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-06 03:17:57.986][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-06 03:17:57.988][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-06 03:17:57.990][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-06 03:17:57.992][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-06 03:17:57.994][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-06 03:17:57.996][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-06 03:17:57.997][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-06 03:17:57.999][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-06 03:17:58.001][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-06 03:17:58.003][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-06 03:17:58.005][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-06 03:17:58.007][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-06 03:17:58.015][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-06 03:17:58.017][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-06 03:17:58.021][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 03:17:58.022][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.025][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.026][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[2024-07-06 03:17:58.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.072][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.DEBUG[2024-07-06 03:17:58.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.081][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[2024-07-06 03:17:58.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.161][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[2024-07-06 03:17:58.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:17:58.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:17:58.179][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-06 03:17:58.192][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:17:58.195][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:58.196][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-06 03:17:58.197][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:58.199][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:17:58.200][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:58.201][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-06 03:17:58.202][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:58.204][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:17:58.205][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-06 03:17:58.206][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:17:58.208][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:58.209][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-06 03:17:58.210][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-06 03:17:58.211][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-06 03:17:58.213][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-06 03:17:58.214][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 03:17:58.214][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-06 03:17:58.214][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-06 03:17:58.216][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-06 03:17:58.217][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:17:58.218][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:17:58.219][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:17:58.220][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:17:58.222][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:17:58.223][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:17:58.224][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-06 03:17:58.224][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-06 03:17:58.225][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:17:58.227][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:17:58.228][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-06 03:17:58.229][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:17:58.237][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-06 03:17:58.239][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-06 03:17:58.241][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-06 03:17:58.243][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-06 03:17:58.246][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-06 03:17:58.273][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:17:58.275][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-06 03:17:58.326][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:17:58.331][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-06 03:17:58.336][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:17:58.338][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:17:58.339][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-06 03:17:58.341][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-06 03:17:58.342][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-06 03:17:58.342][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-06 03:17:58.343][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:17:58.345][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:17:58.346][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-06 03:17:58.347][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-06 03:17:58.348][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:17:58.372][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-06 03:17:58.374][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:17:58.376][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:17:58.377][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-06 03:17:58.379][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:17:58.380][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-06 03:17:58.390][biodb::testThat]
biodb.INFO [2024-07-06 03:17:58.391][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-07-06 03:17:58.392][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:17:58.394][biodb::testThat]
biodb.TRACE[2024-07-06 03:17:58.400][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-07-06 03:17:58.402][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-06 03:17:58.407][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-06 03:17:58.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:17:58.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:17:58.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:17:58.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:17:58.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:17:58.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:17:58.429][FUN] Functions in observer BiodbConfig: [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[2024-07-06 03:17:58.443][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:58.444][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:58.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.447][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:58.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:58.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.471][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:58.472][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:58.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.475][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.511][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:58.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:58.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.517][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:58.518][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:17:58.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.520][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.522][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:58.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:17:58.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.527][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:17:58.529][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:17:58.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.531][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.533][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:17:58.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:17:58.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.549][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:17:58.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:17:58.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.553][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:17:58.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:17:58.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.560][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:58.562][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:58.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:58.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:58.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.572][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:58.573][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:58.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.575][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.577][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:58.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:58.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.583][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:58.584][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:58.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.586][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.588][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:58.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:58.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.594][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:58.595][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:58.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.597][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.599][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:58.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:58.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.604][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:58.606][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:58.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.608][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.610][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:58.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:58.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.615][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:17:58.617][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:17:58.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.619][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.621][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:17:58.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:17:58.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.626][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:17:58.628][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:17:58.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.630][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:17:58.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:17:58.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.637][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:58.639][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:58.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.641][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:58.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:58.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.648][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:58.649][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:58.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.652][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:58.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:58.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.659][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:58.660][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:58.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.663][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:58.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:58.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.669][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:17:58.671][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:17:58.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.673][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.675][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:17:58.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:17:58.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.680][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:17:58.681][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:17:58.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.684][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.686][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:17:58.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:17:58.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.691][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-06 03:17:58.692][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:58.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.695][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.696][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-06 03:17:58.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:58.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:58.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:58.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:58.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:58.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:58.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:58.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.771][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:58.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:17:58.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.776][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:58.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:17:58.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.781][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:58.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:17:58.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.787][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:17:58.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:17:58.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.792][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:17:58.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:17:58.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.797][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:17:58.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:17:58.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:17:58.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:17:58.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:17:58.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:17:58.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:17:58.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:17:58.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:58.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:58.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:58.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:58.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:58.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:58.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.832][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:58.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:58.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.837][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:58.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:58.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.842][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:58.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:58.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.847][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:58.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:58.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.852][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:58.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:58.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.857][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:58.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:58.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.863][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:58.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:58.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.868][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:58.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:58.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.873][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:58.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:58.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.878][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:17:58.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:17:58.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.884][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:17:58.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:17:58.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.889][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:17:58.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:17:58.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.894][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:17:58.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:17:58.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.899][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:17:58.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:17:58.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:17:58.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:17:58.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:17:58.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:17:58.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:17:58.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:17:58.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.927][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:17:58.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:17:58.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:58.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:58.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:58.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:58.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:58.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:58.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.948][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:58.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:58.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.954][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:58.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:58.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.959][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:58.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:58.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:58.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:58.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:58.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:58.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:58.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:58.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:58.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:58.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:58.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:58.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.991][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:58.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:58.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:58.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:58.996][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:58.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:58.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.001][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.006][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.012][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.017][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.022][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.028][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:17:59.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:17:59.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.033][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:17:59.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:17:59.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.038][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:17:59.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:17:59.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.043][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-06 03:17:59.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.054][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.064][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-06 03:17:59.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:59.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:59.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:59.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:59.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.112][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:59.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:59.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.117][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:59.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:59.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:59.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:59.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.128][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.133][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.144][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:17:59.181][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-06 03:17:59.184][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 03:17:59.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 03:17:59.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.189][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 03:17:59.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 03:17:59.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.194][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-06 03:17:59.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-06 03:17:59.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.200][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-06 03:17:59.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-06 03:17:59.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.233][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.277][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.283][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.288][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:17:59.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.326][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.328][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.330][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.347][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.352][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.358][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.363][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.364][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.367][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.368][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:17:59.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:59.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:59.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:59.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:59.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:59.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:59.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.399][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:59.401][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:59.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.403][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:59.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:17:59.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.420][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.425][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.430][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.436][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.437][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.440][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.441][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:17:59.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:17:59.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:17:59.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:17:59.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:17:59.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:17:59.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:17:59.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.472][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:17:59.473][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:17:59.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.476][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:17:59.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:17:59.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.500][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:59.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:59.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.505][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:59.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:59.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.510][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:59.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:59.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.516][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:59.517][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:59.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.520][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.521][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:59.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:17:59.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.537][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:59.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:59.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.542][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:59.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:59.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.548][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:59.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:59.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.553][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:59.554][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:59.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.557][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:17:59.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:17:59.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.574][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:17:59.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:17:59.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.579][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:17:59.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:17:59.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.584][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:17:59.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:17:59.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.590][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:17:59.591][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:17:59.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.593][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.595][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:17:59.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:17:59.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.610][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:17:59.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:17:59.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.615][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:17:59.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:17:59.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.621][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:17:59.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:17:59.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.626][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:17:59.627][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:17:59.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.630][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.631][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:17:59.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:17:59.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.646][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.652][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.657][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.662][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.664][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.666][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.667][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:59.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:59.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:59.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:59.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:59.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:59.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.706][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:59.707][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:59.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.710][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:59.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:17:59.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.726][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:59.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:59.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.732][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:59.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:59.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.737][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:59.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:59.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.742][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:59.743][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:59.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.746][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.747][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:59.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:17:59.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.762][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:59.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:59.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.768][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:59.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:59.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.773][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:59.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:59.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.778][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:59.780][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:59.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.782][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.784][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:59.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:17:59.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.799][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:59.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:59.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.804][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:59.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:59.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.809][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:59.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:59.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.815][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:59.816][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:59.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.819][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.820][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:59.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:17:59.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.835][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:17:59.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:17:59.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:17:59.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:17:59.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.846][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:17:59.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:17:59.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.851][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:17:59.853][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:17:59.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.855][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.857][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:17:59.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:17:59.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:17:59.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:17:59.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:17:59.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:17:59.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:17:59.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:17:59.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.895][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:17:59.897][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:17:59.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.899][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.900][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:17:59.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:17:59.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.932][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.933][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.934][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.935][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:17:59.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.952][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:17:59.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:17:59.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.957][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:17:59.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:17:59.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.962][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:17:59.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:17:59.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.968][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:17:59.969][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:17:59.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.972][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.973][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:17:59.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:17:59.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.988][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:17:59.989][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:17:59.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:17:59.992][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:17:59.998][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:17:59.999][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.001][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.002][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.008][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.010][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.013][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.020][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.023][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.029][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.031][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.033][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.040][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.041][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.044][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.050][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.052][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.054][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.060][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:00.062][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:00.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.065][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.078][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:00.079][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:00.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.082][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.088][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:00.090][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:00.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.093][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.099][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:00.100][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:00.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.103][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.109][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.111][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.114][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.120][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.122][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.124][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.130][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.132][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.135][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.141][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.142][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.145][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.151][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.153][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.155][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.162][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.163][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.166][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.172][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:00.174][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:00.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.176][ef$get] fields variable is a list.
biodb.INFO [2024-07-06 03:18:00.187][biodb::testThat]
biodb.INFO [2024-07-06 03:18:00.188][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-07-06 03:18:00.189][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:00.191][biodb::testThat]
biodb.DEBUG[2024-07-06 03:18:00.211][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-07-06 03:18:00.220][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-06 03:18:00.226][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:00.228][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-06 03:18:00.231][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-07-06 03:18:00.233][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 03:18:00.237][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-07-06 03:18:00.239][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 03:18:00.282][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-06 03:18:00.284][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-06 03:18:00.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:00.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:00.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:00.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:00.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:00.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:00.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 03:18:00.304][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.306][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.309][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.317][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.318][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.321][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.323][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.329][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.330][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.333][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.335][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.341][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.343][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.345][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.347][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.353][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.355][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.357][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.365][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.367][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.368][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.369][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.377][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.379][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.381][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.383][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.389][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.390][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.393][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.395][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.401][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.402][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.405][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.407][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.413][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.414][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.417][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.419][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.425][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:00.426][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:00.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.429][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.430][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:00.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:00.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.436][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:00.438][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:00.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.440][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:00.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:00.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.448][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.449][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.452][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.454][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.460][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.461][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.472][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.483][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.490][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:00.491][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:00.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.494][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.496][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:00.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:00.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.501][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:00.503][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:00.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.505][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.507][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:00.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:00.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.513][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-06 03:18:00.514][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:00.516][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.517][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.519][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-06 03:18:00.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:00.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.541][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.546][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.552][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:00.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.557][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.562][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.568][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:00.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:00.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:00.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.606][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.611][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.616][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:00.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.622][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.627][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.632][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:00.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.638][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:00.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:00.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.643][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:00.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:00.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.648][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:00.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:00.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.654][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:00.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:00.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.659][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:00.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:00.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.672][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:00.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:00.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.677][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:00.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:00.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.682][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:00.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:00.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.688][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:00.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:00.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:00.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:00.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:00.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:00.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:00.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:00.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.725][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.730][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.740][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:00.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:00.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.769][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.781][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.787][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.792][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:00.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.798][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.804][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.809][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:00.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.815][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:00.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:00.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.821][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:00.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:00.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.827][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:00.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:00.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.832][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-06 03:18:00.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.855][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-06 03:18:00.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:00.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.905][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:00.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:00.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.910][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:00.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:00.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.921][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:00.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:00.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:00.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:00.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:00.959][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-06 03:18:00.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-06 03:18:00.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-06 03:18:00.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-06 03:18:00.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-06 03:18:00.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:00.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-06 03:18:00.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-06 03:18:00.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-06 03:18:00.985][biodb::testThat]
biodb.INFO [2024-07-06 03:18:00.987][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-07-06 03:18:00.988][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:00.989][biodb::testThat]
biodb.TRACE[2024-07-06 03:18:00.993][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:00.995][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:00.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:00.997][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:00.999][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-07-06 03:18:01.034][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:01.061][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-07-06 03:18:01.063][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-07-06 03:18:01.064][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-06 03:18:01.065][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.INFO [2024-07-06 03:18:01.068][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2024-07-06 03:18:01.069][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-07-06 03:18:01.070][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-07-06 03:18:01.072][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-07-06 03:18:01.074][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-07-06 03:18:01.076][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-07-06 03:18:01.079][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-07-06 03:18:01.081][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-07-06 03:18:01.082][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-07-06 03:18:01.084][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker3c93d839517977marker".
biodb.TRACE[2024-07-06 03:18:01.086][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-07-06 03:18:01.087][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-07-06 03:18:01.089][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-07-06 03:18:01.091][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-07-06 03:18:01.092][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2024-07-06 03:18:01.094][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-07-06 03:18:01.095][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2024-07-06 03:18:01.103][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-07-06 03:18:01.105][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-07-06 03:18:01.106][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-07-06 03:18:01.108][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2024-07-06 03:18:01.118][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-07-06 03:18:01.119][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-06 03:18:01.121][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-07-06 03:18:01.122][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-07-06 03:18:01.124][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker3c93d861a9258bmarker".
biodb.TRACE[2024-07-06 03:18:01.126][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-07-06 03:18:01.127][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-07-06 03:18:01.128][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-06 03:18:01.130][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:01.132][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-06 03:18:01.133][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-06 03:18:01.135][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-06 03:18:01.136][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-06 03:18:01.137][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-06 03:18:01.139][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-06 03:18:01.140][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-06 03:18:01.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:01.163][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-06 03:18:01.165][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-06 03:18:01.166][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-07-06 03:18:01.180][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:01.182][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:01.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.184][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:01.186][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-07-06 03:18:01.200][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:01.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:01.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.205][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:01.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:01.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.210][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:01.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:01.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:01.219][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[2024-07-06 03:18:01.302][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-06 03:18:01.304][private$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[2024-07-06 03:18:01.305][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-07-06 03:18:01.325][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:01.327][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:01.329][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-06 03:18:01.331][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:01.332][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-06 03:18:01.354][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-06 03:18:01.355][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-06 03:18:01.356][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-06 03:18:01.358][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-06 03:18:01.359][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-06 03:18:01.365][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-06 03:18:01.368][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:01.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:01.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.373][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:01.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:01.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.378][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:01.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:01.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.383][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:01.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:01.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:01.388][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-06 03:18:01.390][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-06 03:18:01.391][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-07-06 03:18:01.405][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.407][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.409][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:01.410][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-07-06 03:18:01.432][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.437][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.442][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:01.451][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-07-06 03:18:01.452][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-07-06 03:18:01.454][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-07-06 03:18:01.455][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-07-06 03:18:01.457][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:01.459][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:01.461][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-06 03:18:01.462][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:01.464][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-06 03:18:01.465][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-06 03:18:01.466][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-06 03:18:01.468][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-06 03:18:01.469][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-06 03:18:01.470][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-06 03:18:01.471][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-06 03:18:01.474][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.479][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.484][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.489][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:01.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:01.494][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-06 03:18:01.495][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-06 03:18:01.496][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-07-06 03:18:01.514][biodb::testThat]
biodb.INFO [2024-07-06 03:18:01.515][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-07-06 03:18:01.516][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:01.518][biodb::testThat]
biodb.TRACE[2024-07-06 03:18:01.531][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.536][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.541][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:01.559][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-07-06 03:18:01.560][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-06 03:18:01.562][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-06 03:18:01.564][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:01.565][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:01.567][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-06 03:18:01.569][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:01.570][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-06 03:18:01.572][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-06 03:18:01.573][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-06 03:18:01.574][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-06 03:18:01.576][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-06 03:18:01.577][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-06 03:18:01.578][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-06 03:18:01.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:01.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:01.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:01.609][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-06 03:18:01.610][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-07-06 03:18:01.628][biodb::testThat]
biodb.INFO [2024-07-06 03:18:01.629][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-07-06 03:18:01.631][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:01.632][biodb::testThat]
biodb.TRACE[2024-07-06 03:18:01.659][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 03:18:01.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 03:18:01.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.664][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 03:18:01.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 03:18:01.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.669][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-06 03:18:01.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-06 03:18:01.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.674][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-06 03:18:01.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-06 03:18:01.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.737][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 03:18:01.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 03:18:01.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.742][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-06 03:18:01.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-06 03:18:01.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.747][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-06 03:18:01.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-06 03:18:01.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:01.752][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-06 03:18:01.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-06 03:18:01.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:01.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-06 03:18:01.771][biodb::testThat]
biodb.INFO [2024-07-06 03:18:01.772][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-07-06 03:18:01.774][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:01.775][biodb::testThat]
biodb.INFO [2024-07-06 03:18:01.785][biodb::testThat]
biodb.INFO [2024-07-06 03:18:01.786][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-07-06 03:18:01.787][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:01.788][biodb::testThat]
biodb.INFO [2024-07-06 03:18:01.798][biodb::testThat]
biodb.INFO [2024-07-06 03:18:01.800][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-07-06 03:18:01.801][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:01.802][biodb::testThat]
biodb.DEBUG[2024-07-06 03:18:01.807][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-07-06 03:18:04.467][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-07-06 03:18:05.004][biodb::testThat]
biodb.INFO [2024-07-06 03:18:05.006][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-07-06 03:18:05.007][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:05.009][biodb::testThat]
biodb.DEBUG[2024-07-06 03:18:08.656][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-07-06 03:18:10.188][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:10.190][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:10.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.193][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.195][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:10.196][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:10.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.199][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.201][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:10.202][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:10.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.205][ef$get] fields variable is a list.
biodb.INFO [2024-07-06 03:18:10.208][biodb::testThat]
biodb.INFO [2024-07-06 03:18:10.209][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-07-06 03:18:10.211][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:10.212][biodb::testThat]
biodb.DEBUG[2024-07-06 03:18:10.215][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-07-06 03:18:10.300][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2024-07-06 03:18:10.302][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2024-07-06 03:18:10.304][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-07-06 03:18:10.305][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-07-06 03:18:10.307][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-07-06 03:18:10.309][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-07-06 03:18:10.311][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-07-06 03:18:10.312][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-07-06 03:18:10.314][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-07-06 03:18:10.316][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-07-06 03:18:10.318][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker3c93d8e64574bmarker".
biodb.TRACE[2024-07-06 03:18:10.320][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-07-06 03:18:10.321][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-07-06 03:18:10.323][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-07-06 03:18:10.325][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-07-06 03:18:10.345][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2024-07-06 03:18:10.347][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-07-06 03:18:10.349][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2024-07-06 03:18:10.352][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-07-06 03:18:10.353][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-07-06 03:18:10.355][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-07-06 03:18:10.357][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2024-07-06 03:18:10.367][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-07-06 03:18:10.369][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-06 03:18:10.370][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-07-06 03:18:10.372][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-07-06 03:18:10.374][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker3c93d84a237ef8marker".
biodb.TRACE[2024-07-06 03:18:10.376][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-07-06 03:18:10.377][self$addFilesToCache] Done adding files.
biodb.TRACE[2024-07-06 03:18:10.403][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-07-06 03:18:10.404][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 03:18:10.406][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 03:18:10.408][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 03:18:10.410][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:10.412][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-06 03:18:10.413][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-06 03:18:10.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:10.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:10.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:10.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:10.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:10.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.429][FUN] Functions in observer BiodbConfig: [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[2024-07-06 03:18:10.432][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:10.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:10.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.437][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:10.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:10.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:10.530][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-07-06 03:18:10.531][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-07-06 03:18:10.554][biodb::testThat]
biodb.INFO [2024-07-06 03:18:10.556][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-07-06 03:18:10.557][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:10.558][biodb::testThat]
biodb.DEBUG[2024-07-06 03:18:10.570][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-07-06 03:18:10.571][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-07-06 03:18:10.573][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-06 03:18:10.575][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:10.578][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-06 03:18:10.581][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-07-06 03:18:10.583][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-06 03:18:10.585][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-06 03:18:10.587][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 03:18:10.589][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:10.591][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-06 03:18:10.593][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-06 03:18:10.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:10.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:10.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:10.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:10.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:10.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.608][FUN] Functions in observer BiodbConfig: [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[2024-07-06 03:18:10.611][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:10.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:10.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.616][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:10.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:10.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:10.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:10.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:10.662][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-07-06 03:18:10.664][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-07-06 03:18:10.665][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-07-06 03:18:10.681][biodb::testThat]
biodb.INFO [2024-07-06 03:18:10.682][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-07-06 03:18:10.684][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:10.685][biodb::testThat]
biodb.INFO [2024-07-06 03:18:10.713][biodb::testThat]
biodb.INFO [2024-07-06 03:18:10.714][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-07-06 03:18:10.716][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:10.717][biodb::testThat]
biodb.DEBUG[2024-07-06 03:18:10.720][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:10.722][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:10.724][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-06 03:18:10.725][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:10.727][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-06 03:18:10.728][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-06 03:18:10.730][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-06 03:18:10.731][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-06 03:18:10.732][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-07-06 03:18:10.742][biodb::testThat]
biodb.INFO [2024-07-06 03:18:10.743][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-07-06 03:18:10.744][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:10.746][biodb::testThat]
biodb.DEBUG[2024-07-06 03:18:10.749][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:10.751][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:10.753][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-06 03:18:10.754][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:10.756][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-06 03:18:10.758][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-06 03:18:10.759][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-06 03:18:10.760][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-06 03:18:10.762][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-07-06 03:18:10.773][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:10.774][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:10.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.777][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.778][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:10.780][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:10.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.782][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:10.783][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:10.785][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:10.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:10.787][ef$get] fields variable is a list.
biodb.INFO [2024-07-06 03:18:10.789][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-06 03:18:10.790][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-06 03:18:10.810][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-06 03:18:10.811][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-06 03:18:10.812][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:10.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:10.815][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:10.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:10.817][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.818][FUN] Functions in observer BiodbConfig: [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 [2024-07-06 03:18:10.823][biodb::testContext]
biodb.INFO [2024-07-06 03:18:10.824][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-06 03:18:10.825][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-07-06 03:18:10.827][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-06 03:18:10.828][biodb::testContext]
biodb.INFO [2024-07-06 03:18:10.833][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-06 03:18:10.835][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-07-06 03:18:10.840][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 03:18:10.841][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-06 03:18:10.843][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-06 03:18:10.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.848][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-06 03:18:10.850][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-06 03:18:10.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.853][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[2024-07-06 03:18:10.855][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-06 03:18:10.856][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-06 03:18:10.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.861][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-06 03:18:10.863][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-06 03:18:10.864][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-06 03:18:10.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.868][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[2024-07-06 03:18:10.869][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-06 03:18:10.870][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-06 03:18:10.872][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-06 03:18:10.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.877][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-06 03:18:10.879][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-06 03:18:10.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.884][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-06 03:18:10.885][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-06 03:18:10.887][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-06 03:18:10.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.892][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-06 03:18:10.893][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-06 03:18:10.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.898][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-06 03:18:10.900][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-06 03:18:10.901][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-06 03:18:10.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.906][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-06 03:18:10.908][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-06 03:18:10.909][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-06 03:18:10.914][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-06 03:18:10.916][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-06 03:18:10.918][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-06 03:18:10.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.924][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-06 03:18:10.926][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-06 03:18:10.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.931][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-06 03:18:10.933][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-06 03:18:10.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.936][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[2024-07-06 03:18:10.938][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-06 03:18:10.939][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-06 03:18:10.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.945][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-06 03:18:10.946][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-06 03:18:10.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.952][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-06 03:18:10.953][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-06 03:18:10.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.976][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-06 03:18:10.978][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-06 03:18:10.983][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-06 03:18:10.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.988][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-06 03:18:10.990][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-06 03:18:10.991][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-06 03:18:10.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:10.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:10.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:10.997][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-06 03:18:11.000][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.001][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-06 03:18:11.002][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.004][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:18:11.005][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.007][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.008][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.009][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.011][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-06 03:18:11.012][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:18:11.014][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.015][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-06 03:18:11.017][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:18:11.018][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.019][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.021][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 03:18:11.021][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-06 03:18:11.021][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-06 03:18:11.021][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-06 03:18:11.021][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-06 03:18:11.022][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:18:11.024][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:11.025][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:11.026][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:18:11.028][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:11.029][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:11.030][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.031][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.033][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:11.034][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:11.035][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.037][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.039][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-06 03:18:11.041][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.043][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-06 03:18:11.044][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.045][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:18:11.047][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.048][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.050][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.051][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.052][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-06 03:18:11.054][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:18:11.055][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.057][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-06 03:18:11.058][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:18:11.059][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.061][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.062][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 03:18:11.062][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-06 03:18:11.062][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-06 03:18:11.062][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-06 03:18:11.062][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-06 03:18:11.064][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:18:11.065][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:11.066][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:11.067][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:18:11.069][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:11.070][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:11.071][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.073][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.074][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:11.075][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:11.076][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.078][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.080][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-06 03:18:11.082][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.083][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-06 03:18:11.085][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.086][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:18:11.087][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.089][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.090][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.091][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.092][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-06 03:18:11.094][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:18:11.095][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.096][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-06 03:18:11.098][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:18:11.099][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.100][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.102][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.103][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:18:11.104][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:11.106][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:11.107][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:18:11.108][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:11.109][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:11.111][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.112][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.113][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:11.114][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:11.116][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.124][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.126][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-06 03:18:11.128][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.130][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-06 03:18:11.131][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.132][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:18:11.134][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.135][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.136][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.138][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.139][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-06 03:18:11.140][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:18:11.142][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.143][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-06 03:18:11.144][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:18:11.146][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.147][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.148][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.150][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:18:11.151][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:11.152][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:11.153][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:18:11.155][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:11.156][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:11.157][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.158][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.160][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:11.161][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:11.162][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.164][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.165][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 03:18:11.167][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.278][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-06 03:18:11.280][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-06 03:18:11.282][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-06 03:18:11.283][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-06 03:18:11.285][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-06 03:18:11.287][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-06 03:18:11.289][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-06 03:18:11.291][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-06 03:18:11.293][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-06 03:18:11.295][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-06 03:18:11.297][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-06 03:18:11.299][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-06 03:18:11.300][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-06 03:18:11.302][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-06 03:18:11.304][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-06 03:18:11.306][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-06 03:18:11.308][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-06 03:18:11.310][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-06 03:18:11.312][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-06 03:18:11.314][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-06 03:18:11.316][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-06 03:18:11.317][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-06 03:18:11.319][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-06 03:18:11.321][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-06 03:18:11.323][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-06 03:18:11.325][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-06 03:18:11.327][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-06 03:18:11.329][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-06 03:18:11.331][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-06 03:18:11.333][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-06 03:18:11.335][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-06 03:18:11.337][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-06 03:18:11.338][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-06 03:18:11.340][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-06 03:18:11.342][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-06 03:18:11.344][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-06 03:18:11.346][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-06 03:18:11.348][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-06 03:18:11.350][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-06 03:18:11.352][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-06 03:18:11.354][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-06 03:18:11.356][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-06 03:18:11.358][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-06 03:18:11.359][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-06 03:18:11.361][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-06 03:18:11.363][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-06 03:18:11.365][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-06 03:18:11.367][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-06 03:18:11.369][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-06 03:18:11.371][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-06 03:18:11.373][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-06 03:18:11.375][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-06 03:18:11.377][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-06 03:18:11.379][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-06 03:18:11.380][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-06 03:18:11.382][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-06 03:18:11.384][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-06 03:18:11.386][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-06 03:18:11.388][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-06 03:18:11.390][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-06 03:18:11.392][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-06 03:18:11.394][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-06 03:18:11.395][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-06 03:18:11.397][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-06 03:18:11.407][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-06 03:18:11.409][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-06 03:18:11.411][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-06 03:18:11.413][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-06 03:18:11.415][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-06 03:18:11.417][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-06 03:18:11.419][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-06 03:18:11.420][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-06 03:18:11.422][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-06 03:18:11.424][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-06 03:18:11.426][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-06 03:18:11.428][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-06 03:18:11.430][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-06 03:18:11.432][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-06 03:18:11.434][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-06 03:18:11.436][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-06 03:18:11.438][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-06 03:18:11.440][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-06 03:18:11.442][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-06 03:18:11.444][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-06 03:18:11.446][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-06 03:18:11.447][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 03:18:11.448][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.451][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.535][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[2024-07-06 03:18:11.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.560][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[2024-07-06 03:18:11.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.569][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[2024-07-06 03:18:11.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.577][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[2024-07-06 03:18:11.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:11.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:11.605][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-06 03:18:11.606][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:18:11.609][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.610][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.612][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.613][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:18:11.614][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.616][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-06 03:18:11.617][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.619][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.620][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-06 03:18:11.621][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:18:11.623][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.624][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-06 03:18:11.625][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-06 03:18:11.627][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-06 03:18:11.628][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:11.629][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 03:18:11.629][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-06 03:18:11.629][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-06 03:18:11.631][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-06 03:18:11.632][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:11.633][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:11.635][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:18:11.636][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:11.637][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:11.638][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:18:11.640][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-06 03:18:11.640][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-06 03:18:11.641][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:11.642][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:11.644][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:11.645][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:11.647][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-06 03:18:11.649][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-06 03:18:11.651][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-06 03:18:11.653][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-06 03:18:11.655][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-06 03:18:11.660][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:18:11.661][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-06 03:18:11.663][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:18:11.665][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-06 03:18:11.667][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:18:11.668][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:18:11.670][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-06 03:18:11.671][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-06 03:18:11.673][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-06 03:18:11.673][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-06 03:18:11.674][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:11.675][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:11.677][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-06 03:18:11.678][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-06 03:18:11.679][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:18:11.681][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-06 03:18:11.683][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:18:11.692][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:18:11.694][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-06 03:18:11.695][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:18:11.697][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-06 03:18:11.699][biodb::testThat]
biodb.INFO [2024-07-06 03:18:11.700][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-07-06 03:18:11.701][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:11.702][biodb::testThat]
biodb.DEBUG[2024-07-06 03:18:11.707][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:11.709][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:11.711][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-06 03:18:11.713][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:11.714][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-06 03:18:11.716][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-06 03:18:11.717][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-06 03:18:11.719][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-06 03:18:11.720][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-06 03:18:11.724][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-07-06 03:18:11.730][biodb::testThat]
biodb.INFO [2024-07-06 03:18:11.732][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-07-06 03:18:11.733][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:11.734][biodb::testThat]
biodb.DEBUG[2024-07-06 03:18:11.737][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-07-06 03:18:11.738][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-06 03:18:11.740][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:11.742][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-06 03:18:11.745][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-07-06 03:18:11.747][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 03:18:11.749][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-06 03:18:11.750][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 03:18:11.752][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-06 03:18:11.754][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-06 03:18:11.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:11.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:11.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:11.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:11.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:11.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:11.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 03:18:11.773][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:11.775][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:11.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.777][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:11.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:11.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.785][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:11.786][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:11.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.789][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.790][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:11.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:11.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.796][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:11.797][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:11.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.800][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.802][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:11.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:11.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.807][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:11.809][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:11.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.811][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.813][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:11.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:11.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.818][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:11.820][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:11.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.822][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:11.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:11.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.830][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:11.831][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:11.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.834][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:11.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:11.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.849][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:11.851][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:11.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.853][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.855][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:11.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:11.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.860][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:11.862][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:11.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.864][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.866][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:11.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:11.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.871][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:11.873][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:11.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.875][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.877][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:11.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:11.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.883][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:11.884][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:11.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.887][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.888][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:11.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:11.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.894][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:11.895][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:11.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.898][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.899][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:11.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:11.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.905][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:11.906][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:11.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.909][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.911][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:11.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:11.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.916][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:11.917][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:11.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.920][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:11.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:11.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.927][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:11.929][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:11.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.931][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:11.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:11.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.939][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:11.940][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:11.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.942][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.944][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:11.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:11.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.949][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:11.951][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:11.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.953][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.955][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:11.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:11.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.960][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:11.962][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:11.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.964][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.966][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:11.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:11.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.971][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-06 03:18:11.973][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:11.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.975][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.977][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-06 03:18:11.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:11.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:11.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:11.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:11.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:11.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:11.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:11.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.006][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:12.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:12.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.012][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:12.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:12.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.017][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:12.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:12.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.022][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:12.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:12.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.028][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:12.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:12.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.033][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:12.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:12.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:12.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:12.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:12.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:12.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:12.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:12.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:12.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:12.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:12.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:12.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:12.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:12.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.070][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:12.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:12.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.075][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:12.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:12.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.081][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:12.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:12.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.086][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:12.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:12.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.091][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:12.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:12.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.097][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:12.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:12.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.102][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:12.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:12.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.107][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:12.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:12.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.113][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:12.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:12.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.118][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:12.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:12.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.131][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:12.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:12.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.136][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:12.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:12.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.142][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:12.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:12.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.147][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:12.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:12.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.152][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:12.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:12.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:12.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:12.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:12.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:12.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.168][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:12.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:12.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.173][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.179][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.184][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.189][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:12.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:12.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.195][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:12.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:12.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.200][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:12.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:12.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:12.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:12.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:12.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:12.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:12.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:12.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.221][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:12.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:12.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.227][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:12.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:12.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:12.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:12.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.237][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:12.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:12.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.242][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:12.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:12.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.248][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:12.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:12.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.253][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:12.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:12.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.259][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:12.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:12.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.271][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:12.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:12.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.277][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:12.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:12.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.282][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:12.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:12.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.287][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:12.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:12.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.293][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-06 03:18:12.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.314][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-06 03:18:12.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:12.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.321][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:12.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:12.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:12.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:12.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:12.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:12.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:12.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:12.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:12.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:12.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.347][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:12.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:12.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.353][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:12.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:12.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.363][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:12.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:12.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:12.400][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-07-06 03:18:12.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:12.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:12.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:12.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:12.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-06 03:18:12.432][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-06 03:18:12.434][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-06 03:18:12.435][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-06 03:18:12.437][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-06 03:18:12.438][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:12.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:12.440][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.442][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-06 03:18:12.448][biodb::testContext]
biodb.INFO [2024-07-06 03:18:12.450][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-06 03:18:12.451][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-07-06 03:18:12.452][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-06 03:18:12.453][biodb::testContext]
biodb.INFO [2024-07-06 03:18:12.458][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-06 03:18:12.460][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-07-06 03:18:12.465][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 03:18:12.466][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-06 03:18:12.468][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-06 03:18:12.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.471][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[2024-07-06 03:18:12.473][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-06 03:18:12.474][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-06 03:18:12.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.479][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-06 03:18:12.480][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-06 03:18:12.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.485][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-06 03:18:12.486][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-06 03:18:12.488][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-06 03:18:12.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.493][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-06 03:18:12.494][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-06 03:18:12.495][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-06 03:18:12.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.500][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-06 03:18:12.501][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-06 03:18:12.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.506][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-06 03:18:12.508][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-06 03:18:12.509][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-06 03:18:12.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.514][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-06 03:18:12.515][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-06 03:18:12.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.520][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-06 03:18:12.521][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-06 03:18:12.523][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-06 03:18:12.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.526][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[2024-07-06 03:18:12.528][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-06 03:18:12.529][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-06 03:18:12.530][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-06 03:18:12.532][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-06 03:18:12.533][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-06 03:18:12.534][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-06 03:18:12.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.539][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-06 03:18:12.540][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-06 03:18:12.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.545][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-06 03:18:12.554][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-06 03:18:12.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.560][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-06 03:18:12.561][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-06 03:18:12.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.566][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-06 03:18:12.567][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-06 03:18:12.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.572][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-06 03:18:12.573][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-06 03:18:12.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.577][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[2024-07-06 03:18:12.578][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-06 03:18:12.580][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-06 03:18:12.585][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-06 03:18:12.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.590][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-06 03:18:12.591][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-06 03:18:12.593][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-06 03:18:12.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.598][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-06 03:18:12.600][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.601][self$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[2024-07-06 03:18:12.603][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.604][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:18:12.605][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.607][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.608][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.609][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.611][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-06 03:18:12.612][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:18:12.614][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.615][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-06 03:18:12.616][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:18:12.618][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.619][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.620][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 03:18:12.620][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-06 03:18:12.620][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-06 03:18:12.620][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-06 03:18:12.620][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-06 03:18:12.622][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:18:12.623][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:12.624][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:12.625][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:18:12.627][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:12.628][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:12.629][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.631][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.632][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:12.633][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:12.634][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.636][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.637][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-06 03:18:12.640][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.641][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-06 03:18:12.643][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.644][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:18:12.645][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.647][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.648][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.649][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.651][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-06 03:18:12.652][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:18:12.653][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.655][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-06 03:18:12.656][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:18:12.657][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.659][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.660][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 03:18:12.660][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-06 03:18:12.660][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-06 03:18:12.660][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-06 03:18:12.660][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-06 03:18:12.661][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:18:12.663][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:12.664][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:12.665][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:18:12.666][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:12.668][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:12.669][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.670][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.671][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:12.673][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:12.674][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.675][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.677][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-06 03:18:12.679][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.681][self$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[2024-07-06 03:18:12.682][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.683][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:18:12.685][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.686][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.687][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.688][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.697][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-06 03:18:12.699][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:18:12.700][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.702][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-06 03:18:12.703][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:18:12.704][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.706][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.707][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.708][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:18:12.709][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:12.711][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:12.712][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:18:12.713][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:12.714][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:12.716][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.717][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.718][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:12.720][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:12.721][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.722][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.724][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-06 03:18:12.726][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.728][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-06 03:18:12.729][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.730][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:18:12.732][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.733][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.734][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.736][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.737][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-06 03:18:12.738][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:18:12.740][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.741][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-06 03:18:12.742][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:18:12.744][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.745][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:12.746][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.748][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-06 03:18:12.749][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:12.750][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:12.751][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:18:12.753][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:12.754][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:12.755][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:18:12.756][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.758][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:12.759][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:12.760][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:12.761][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:12.763][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 03:18:12.764][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.813][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[2024-07-06 03:18:12.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.825][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[2024-07-06 03:18:12.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:12.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.868][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[2024-07-06 03:18:12.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:12.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:12.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:12.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:12.874][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[2024-07-06 03:18:12.875][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-06 03:18:12.877][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-06 03:18:12.879][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-06 03:18:12.881][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-06 03:18:12.883][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-06 03:18:12.885][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-06 03:18:12.887][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-06 03:18:12.889][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-06 03:18:12.891][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-06 03:18:12.893][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-06 03:18:12.895][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-06 03:18:12.897][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-06 03:18:12.898][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-06 03:18:12.900][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-06 03:18:12.902][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-06 03:18:12.904][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-06 03:18:12.906][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-06 03:18:12.908][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-06 03:18:12.910][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-06 03:18:12.912][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-06 03:18:12.914][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-06 03:18:12.916][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-06 03:18:12.918][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-06 03:18:12.920][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-06 03:18:12.921][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-06 03:18:12.923][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-06 03:18:12.925][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-06 03:18:12.927][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-06 03:18:12.929][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-06 03:18:12.931][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-06 03:18:12.933][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-06 03:18:12.935][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-06 03:18:12.937][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-06 03:18:12.939][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-06 03:18:12.941][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-06 03:18:12.942][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-06 03:18:12.944][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-06 03:18:12.946][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-06 03:18:12.948][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-06 03:18:12.950][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-06 03:18:12.952][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-06 03:18:12.954][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-06 03:18:12.956][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-06 03:18:12.958][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-06 03:18:12.960][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-06 03:18:12.962][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-06 03:18:12.971][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-06 03:18:12.973][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-06 03:18:12.975][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-06 03:18:12.977][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-06 03:18:12.979][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-06 03:18:12.981][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-06 03:18:12.983][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-06 03:18:12.985][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-06 03:18:12.987][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-06 03:18:12.989][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-06 03:18:12.991][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-06 03:18:12.993][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-06 03:18:12.995][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-06 03:18:12.997][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-06 03:18:12.999][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-06 03:18:13.001][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-06 03:18:13.003][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-06 03:18:13.004][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-06 03:18:13.006][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-06 03:18:13.008][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-06 03:18:13.010][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-06 03:18:13.012][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-06 03:18:13.014][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-06 03:18:13.016][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-06 03:18:13.018][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-06 03:18:13.020][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-06 03:18:13.022][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-06 03:18:13.024][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-06 03:18:13.026][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-06 03:18:13.028][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-06 03:18:13.030][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-06 03:18:13.032][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-06 03:18:13.034][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-06 03:18:13.035][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-06 03:18:13.037][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-06 03:18:13.039][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-06 03:18:13.041][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-06 03:18:13.043][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-06 03:18:13.045][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-06 03:18:13.047][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-06 03:18:13.048][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.050][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.085][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[2024-07-06 03:18:13.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.139][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[2024-07-06 03:18:13.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-06 03:18:13.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:13.218][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-06 03:18:13.221][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:18:13.224][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:13.225][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-06 03:18:13.227][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:13.228][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-06 03:18:13.230][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:13.231][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-06 03:18:13.232][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:13.234][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-06 03:18:13.235][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-06 03:18:13.237][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-06 03:18:13.238][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:13.240][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-06 03:18:13.241][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-06 03:18:13.243][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-06 03:18:13.245][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-06 03:18:13.246][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-06 03:18:13.246][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-06 03:18:13.246][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-06 03:18:13.248][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-06 03:18:13.249][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:13.250][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:13.252][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-06 03:18:13.253][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-06 03:18:13.268][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-06 03:18:13.271][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-06 03:18:13.272][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-06 03:18:13.272][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-06 03:18:13.274][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:13.275][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:13.277][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-06 03:18:13.278][self$setPropertyValue]
biodb.DEBUG[2024-07-06 03:18:13.280][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-06 03:18:13.282][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-06 03:18:13.284][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-06 03:18:13.287][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-06 03:18:13.289][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-06 03:18:13.294][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:18:13.295][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-06 03:18:13.297][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:18:13.299][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-06 03:18:13.300][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:18:13.302][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:18:13.304][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-06 03:18:13.305][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-06 03:18:13.306][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-06 03:18:13.306][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-06 03:18:13.308][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-06 03:18:13.309][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-06 03:18:13.310][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-06 03:18:13.312][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-06 03:18:13.313][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-06 03:18:13.315][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-06 03:18:13.317][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:18:13.318][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:18:13.320][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.1/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-06 03:18:13.322][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-06 03:18:13.323][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-06 03:18:13.325][biodb::testThat]
biodb.INFO [2024-07-06 03:18:13.326][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-07-06 03:18:13.328][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-06 03:18:13.329][biodb::testThat]
biodb.DEBUG[2024-07-06 03:18:13.332][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-06 03:18:13.333][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-07-06 03:18:13.334][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-07-06 03:18:13.339][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:13.341][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:13.343][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-06 03:18:13.344][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:13.346][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-06 03:18:13.348][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-06 03:18:13.349][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-06 03:18:13.350][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-06 03:18:13.352][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-06 03:18:13.353][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-06 03:18:13.354][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-07-06 03:18:13.357][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-07-06 03:18:13.358][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-06 03:18:13.360][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:13.362][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-06 03:18:13.365][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-07-06 03:18:13.367][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 03:18:13.369][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-07-06 03:18:13.371][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 03:18:13.372][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-06 03:18:13.374][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-06 03:18:13.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:13.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:13.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:13.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:13.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:13.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:13.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 03:18:13.394][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:13.395][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:13.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.398][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:13.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:13.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.406][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:13.407][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:13.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.410][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.419][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:13.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:13.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.426][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:13.427][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:13.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.430][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.432][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:13.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:13.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.437][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:13.439][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:13.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.441][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.443][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:13.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:13.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:13.450][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:13.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.453][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:13.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:13.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.460][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:13.462][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:13.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:13.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:13.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.472][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:13.473][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:13.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.476][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.478][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:13.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:13.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.483][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:13.485][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:13.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.487][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.489][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:13.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:13.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.495][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:13.496][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:13.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.499][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.501][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:13.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:13.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.506][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:13.508][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:13.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.510][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.512][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:13.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:13.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.518][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:13.519][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:13.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.522][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.524][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:13.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:13.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.529][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:13.531][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:13.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.533][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.535][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:13.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:13.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.541][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.542][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.545][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.552][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:13.554][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:13.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.570][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:13.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:13.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.579][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:13.580][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:13.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.583][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.585][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:13.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:13.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.590][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:13.591][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:13.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.594][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.596][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:13.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:13.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.601][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:13.603][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:13.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.605][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.607][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:13.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:13.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.613][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-06 03:18:13.614][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:13.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.617][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.619][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-06 03:18:13.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:13.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:13.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:13.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:13.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:13.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:13.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:13.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.640][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:13.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:13.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.646][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:13.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:13.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.651][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:13.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:13.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.656][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:13.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:13.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.662][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:13.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:13.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.667][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:13.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:13.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:13.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:13.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:13.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:13.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:13.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:13.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:13.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:13.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:13.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:13.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:13.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:13.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.706][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:13.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:13.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.719][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:13.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:13.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.726][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:13.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:13.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.731][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:13.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:13.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.737][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:13.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:13.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.742][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:13.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:13.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.748][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:13.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:13.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.753][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:13.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:13.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.759][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:13.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:13.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.765][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:13.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:13.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.770][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:13.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:13.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.775][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:13.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:13.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.781][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:13.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:13.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.787][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:13.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:13.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.792][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:13.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:13.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:13.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:13.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:13.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:13.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:13.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:13.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.814][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.831][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:13.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:13.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.836][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:13.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:13.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.842][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:13.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:13.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:13.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:13.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:13.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:13.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:13.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:13.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:13.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:13.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.877][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:13.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:13.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.883][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:13.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:13.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.888][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:13.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:13.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.894][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:13.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:13.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.899][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:13.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:13.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.905][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:13.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:13.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.910][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:13.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:13.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.916][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:13.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:13.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.921][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:13.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:13.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.927][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:13.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:13.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.932][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:13.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:13.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.938][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-06 03:18:13.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.960][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-06 03:18:13.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:13.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.967][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:13.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:13.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.972][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:13.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:13.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.978][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:13.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:13.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:13.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:13.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:13.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:13.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:13.995][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:13.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:13.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:13.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.000][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:14.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:14.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.019][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:14.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:14.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:14.059][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-06 03:18:14.060][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.066][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.072][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.078][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:14.084][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-06 03:18:14.085][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-06 03:18:14.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:14.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:14.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:14.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:14.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:14.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:14.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:14.101][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-07-06 03:18:14.102][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-06 03:18:14.104][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:14.106][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-06 03:18:14.109][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-07-06 03:18:14.111][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-06 03:18:14.113][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-06 03:18:14.114][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-06 03:18:14.116][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-06 03:18:14.118][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-06 03:18:14.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:14.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:14.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:14.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:14.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:14.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:14.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-06 03:18:14.137][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.138][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.141][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.148][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:14.150][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:14.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.152][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.154][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:14.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:14.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.168][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:14.170][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:14.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.173][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.175][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:14.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:14.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.180][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:14.182][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:14.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.186][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:14.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:14.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:14.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:14.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:14.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:14.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.203][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:14.205][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:14.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.207][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:14.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:14.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.215][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:14.217][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:14.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.219][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.221][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:14.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:14.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.227][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:14.229][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:14.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.231][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.233][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:14.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:14.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.239][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:14.240][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:14.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.243][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.245][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:14.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:14.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.250][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:14.252][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:14.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.254][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.256][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:14.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:14.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.262][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:14.264][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:14.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.266][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.268][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:14.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:14.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.274][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:14.275][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:14.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.278][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.280][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:14.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:14.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.285][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.287][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.289][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.297][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:14.298][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:14.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.301][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:14.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:14.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.309][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:14.317][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:14.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.321][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:14.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:14.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.328][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.330][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.332][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.334][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.340][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:14.341][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:14.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.344][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.346][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:14.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:14.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.351][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-06 03:18:14.353][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:14.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.355][ef$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.357][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-06 03:18:14.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:14.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.380][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:14.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:14.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.385][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:14.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:14.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.391][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-06 03:18:14.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-06 03:18:14.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.396][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:14.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:14.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.402][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:14.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:14.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.407][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-06 03:18:14.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-06 03:18:14.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:14.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:14.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:14.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:14.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-06 03:18:14.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-06 03:18:14.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:14.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:14.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:14.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:14.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:14.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-06 03:18:14.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.445][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:14.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:14.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:14.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:14.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.463][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:14.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-06 03:18:14.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.470][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:14.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:14.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.476][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:14.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:14.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.481][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:14.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-06 03:18:14.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.487][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:14.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:14.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.492][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:14.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:14.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.497][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:14.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-06 03:18:14.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.503][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.508][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.514][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.519][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:14.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:14.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.524][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:14.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:14.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.530][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-06 03:18:14.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-06 03:18:14.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.535][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:14.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:14.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:14.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:14.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-06 03:18:14.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-06 03:18:14.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.562][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.568][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:14.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:14.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.573][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:14.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:14.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.578][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:14.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-06 03:18:14.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:14.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:14.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:14.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:14.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:14.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-06 03:18:14.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.605][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:14.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:14.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:14.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:14.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.637][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:14.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:14.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.642][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:14.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:14.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.648][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:14.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:14.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.653][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:14.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-06 03:18:14.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.659][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:14.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:14.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.665][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:14.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:14.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.670][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:14.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-06 03:18:14.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.676][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:14.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:14.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.681][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:14.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:14.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.687][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-06 03:18:14.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-06 03:18:14.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.692][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-06 03:18:14.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.715][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-06 03:18:14.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-06 03:18:14.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.722][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:14.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:14.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:14.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:14.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:14.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:14.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:14.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:14.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.744][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-06 03:18:14.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-06 03:18:14.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.750][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:14.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:14.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.755][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:14.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:14.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.774][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:14.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-06 03:18:14.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-06 03:18:14.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-06 03:18:14.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:14.812][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-07-06 03:18:14.814][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.819][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.825][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.830][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:14.835][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-06 03:18:14.837][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-07-06 03:18:14.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:14.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:14.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:14.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:14.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:14.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:14.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-06 03:18:14.858][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-06 03:18:14.859][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-07-06 03:18:14.861][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-07-06 03:18:14.863][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:14.865][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:14.867][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-06 03:18:14.869][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:14.870][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-06 03:18:14.872][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-06 03:18:14.873][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-06 03:18:14.874][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-06 03:18:14.876][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-06 03:18:14.877][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-06 03:18:14.878][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-06 03:18:14.881][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.886][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.892][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.897][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.903][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.908][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.922][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:14.928][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-06 03:18:14.929][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-06 03:18:14.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:14.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:14.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:14.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:14.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:14.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:14.942][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.TRACE[2024-07-06 03:18:14.944][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.949][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.955][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.960][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.966][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.971][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:14.976][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:14.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:14.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:14.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:14.982][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-07-06 03:18:14.983][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-06 03:18:14.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:14.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:14.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:14.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:14.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:14.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:14.997][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[2024-07-06 03:18:15.003][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-06 03:18:15.005][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-07-06 03:18:15.006][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-07-06 03:18:15.008][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:15.010][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:15.012][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-06 03:18:15.014][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-06 03:18:15.015][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-06 03:18:15.017][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-06 03:18:15.018][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-06 03:18:15.019][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-06 03:18:15.021][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-06 03:18:15.022][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-06 03:18:15.023][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-06 03:18:15.026][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.031][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.036][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.042][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.047][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.053][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.066][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:15.072][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-07-06 03:18:15.073][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-07-06 03:18:15.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:15.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:15.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:15.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:15.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:15.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:15.086][FUN] Functions in observer BiodbConfig: [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[2024-07-06 03:18:15.088][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.094][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.099][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.104][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.110][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.115][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-06 03:18:15.120][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-06 03:18:15.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-06 03:18:15.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-06 03:18:15.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-06 03:18:15.126][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-06 03:18:15.127][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-06 03:18:15.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-06 03:18:15.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:15.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:15.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:15.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:15.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:15.141][FUN] Functions in observer BiodbConfig: [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 [2024-07-06 03:18:15.150][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-06 03:18:15.152][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-06 03:18:15.153][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-06 03:18:15.155][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-06 03:18:15.156][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-06 03:18:15.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-06 03:18:15.158][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-06 03:18:15.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-06 03:18:15.161][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-06 03:18:15.162][FUN] Functions in observer 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
11.973 0.388 20.547