Pierrick Roger
| Snapshot Date: 2024-05-29 14:00:10 -0400 (Wed, 29 May 2024) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: RELEASE_3_19 |
| git_last_commit: a7f41b2 |
| git_last_commit_date: 2024-04-30 11:39:05 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-05-30 11:34:56 -0400 (Thu, 30 May 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4753 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4518 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 202/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.10.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | ERROR | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | see weekly results here | ||||||||||||
|
To the developers/maintainers of the biodbHmdb package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbHmdb |
| Version: 1.10.0 |
| Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings biodbHmdb_1.10.0.tar.gz |
| StartedAt: 2024-05-29 20:33:49 -0400 (Wed, 29 May 2024) |
| EndedAt: 2024-05-29 20:34:37 -0400 (Wed, 29 May 2024) |
| EllapsedTime: 48.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: NA |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings biodbHmdb_1.10.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.10.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... WARNING
Found the following significant warnings:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
See ‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘biodbHmdb.Rmd’ using rmarkdown
Quitting from lines 121-122 [unnamed-chunk-11] (biodbHmdb.Rmd)
Error: processing vignette 'biodbHmdb.Rmd' failed with diagnostics:
attempt to apply non-function
--- failed re-building ‘biodbHmdb.Rmd’
SUMMARY: processing the following file failed:
‘biodbHmdb.Rmd’
Error: Vignette re-building failed.
Execution halted
* checking PDF version of manual ... OK
* DONE
Status: 1 ERROR, 2 WARNINGs, 2 NOTEs
See
‘/home/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor ‘EntryMaker::EntryMaker()’:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
23 | TagDetector accession_tag;
| ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
22 | bool closed;
| ^~~~~~
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
5 | EntryMaker::EntryMaker() :
| ^~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.19-bioc/R/lib -L/usr/local/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -L/home/biocbuild/bbs-3.19-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.19-bioc/R/site-library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package ‘biodbHmdb’
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)
biodbHmdb.Rcheck/tests/testthat.Rout
R version 4.4.0 (2024-04-24) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-05-29 20:34:22.789][biodb::testContext]
biodb.INFO [2024-05-29 20:34:22.793][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-29 20:34:22.794][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-05-29 20:34:22.795][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-29 20:34:22.796][biodb::testContext]
biodb.INFO [2024-05-29 20:34:22.799][biodb::testThat]
biodb.INFO [2024-05-29 20:34:22.800][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-05-29 20:34:22.801][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:22.802][biodb::testThat]
biodb.INFO [2024-05-29 20:34:22.910][biodb::testContext]
biodb.INFO [2024-05-29 20:34:22.912][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-29 20:34:22.913][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-05-29 20:34:22.914][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-29 20:34:22.915][biodb::testContext]
biodb.INFO [2024-05-29 20:34:22.925][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-29 20:34:22.928][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-05-29 20:34:22.952][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-29 20:34:22.953][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-29 20:34:22.955][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-29 20:34:22.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:22.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:22.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:22.958][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-29 20:34:22.979][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-29 20:34:22.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:22.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:22.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:22.983][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-29 20:34:22.984][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-29 20:34:22.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:22.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:22.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:22.988][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-29 20:34:22.989][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-29 20:34:22.990][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-29 20:34:22.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:22.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:22.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:22.994][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-29 20:34:22.995][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-29 20:34:22.996][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-29 20:34:22.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:22.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:22.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.000][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-29 20:34:23.001][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-29 20:34:23.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.005][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-29 20:34:23.006][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-29 20:34:23.007][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-29 20:34:23.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.011][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-29 20:34:23.012][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-29 20:34:23.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.015][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-29 20:34:23.016][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-29 20:34:23.017][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-29 20:34:23.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.020][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-29 20:34:23.021][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-29 20:34:23.022][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-29 20:34:23.023][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-29 20:34:23.024][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-29 20:34:23.025][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-29 20:34:23.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.029][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-29 20:34:23.030][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-29 20:34:23.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.033][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-29 20:34:23.034][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-29 20:34:23.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.038][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-29 20:34:23.039][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-29 20:34:23.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.042][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-29 20:34:23.043][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-29 20:34:23.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.047][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-29 20:34:23.048][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-29 20:34:23.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.051][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-29 20:34:23.052][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-29 20:34:23.056][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-29 20:34:23.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.059][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-29 20:34:23.060][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-29 20:34:23.061][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-29 20:34:23.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.068][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-29 20:34:23.102][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.117][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-29 20:34:23.118][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.119][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:23.120][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.121][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.122][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.123][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.129][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-29 20:34:23.130][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:23.131][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.132][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-29 20:34:23.133][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:23.134][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.135][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.136][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-29 20:34:23.136][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-29 20:34:23.136][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-29 20:34:23.136][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-29 20:34:23.136][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-29 20:34:23.137][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:23.138][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:23.139][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:23.139][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:23.140][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:23.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:23.142][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.143][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.144][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:23.145][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:23.146][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.146][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.148][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-29 20:34:23.149][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.150][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-29 20:34:23.151][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.152][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:23.153][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.154][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.155][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.156][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.157][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-29 20:34:23.158][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:23.159][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.160][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-29 20:34:23.160][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:23.161][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.162][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.163][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-29 20:34:23.163][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-29 20:34:23.163][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-29 20:34:23.163][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-29 20:34:23.163][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-29 20:34:23.164][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:23.165][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:23.166][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:23.167][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:23.168][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:23.169][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:23.169][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.170][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.171][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:23.172][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:23.173][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.174][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.175][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-29 20:34:23.177][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.178][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-29 20:34:23.179][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.180][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:23.181][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.181][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.182][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.183][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.184][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-29 20:34:23.185][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:23.186][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.187][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-29 20:34:23.188][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:23.189][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.190][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.191][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.192][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:23.192][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:23.193][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:23.194][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:23.195][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:23.196][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:23.197][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.198][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.199][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:23.199][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:23.200][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.201][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.202][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-29 20:34:23.204][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.205][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-29 20:34:23.206][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.207][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:23.208][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.209][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.210][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.210][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.211][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-29 20:34:23.212][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:23.213][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.214][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-29 20:34:23.215][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:23.216][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.217][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.218][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.219][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:23.220][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:23.221][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:23.222][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:23.223][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:23.223][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:23.224][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.225][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.226][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:23.227][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:23.228][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.229][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.233][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-29 20:34:23.234][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.239][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[2024-05-29 20:34:23.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.314][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-29 20:34:23.319][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-29 20:34:23.321][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-29 20:34:23.322][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-29 20:34:23.323][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-29 20:34:23.325][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-29 20:34:23.326][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-29 20:34:23.327][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-29 20:34:23.328][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-29 20:34:23.330][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-29 20:34:23.331][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-29 20:34:23.332][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-29 20:34:23.334][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-29 20:34:23.335][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-29 20:34:23.336][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-29 20:34:23.338][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-29 20:34:23.339][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-29 20:34:23.340][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-29 20:34:23.342][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-29 20:34:23.343][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-29 20:34:23.344][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-29 20:34:23.346][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-29 20:34:23.347][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-29 20:34:23.348][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-29 20:34:23.350][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-29 20:34:23.351][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-29 20:34:23.352][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-29 20:34:23.354][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-29 20:34:23.355][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-29 20:34:23.356][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-29 20:34:23.358][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-29 20:34:23.359][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-29 20:34:23.361][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-29 20:34:23.362][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-29 20:34:23.363][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-29 20:34:23.365][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-29 20:34:23.366][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-29 20:34:23.367][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-29 20:34:23.369][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-29 20:34:23.370][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-29 20:34:23.371][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-29 20:34:23.373][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-29 20:34:23.374][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-29 20:34:23.375][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-29 20:34:23.377][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-29 20:34:23.378][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-29 20:34:23.380][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-29 20:34:23.381][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-29 20:34:23.382][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-29 20:34:23.384][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-29 20:34:23.385][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-29 20:34:23.386][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-29 20:34:23.388][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-29 20:34:23.389][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-29 20:34:23.391][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-29 20:34:23.392][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-29 20:34:23.393][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-29 20:34:23.395][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-29 20:34:23.396][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-29 20:34:23.397][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-29 20:34:23.399][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-29 20:34:23.400][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-29 20:34:23.401][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-29 20:34:23.403][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-29 20:34:23.404][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-29 20:34:23.405][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-29 20:34:23.407][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-29 20:34:23.408][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-29 20:34:23.410][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-29 20:34:23.411][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-29 20:34:23.413][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-29 20:34:23.414][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-29 20:34:23.416][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-29 20:34:23.417][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-29 20:34:23.418][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-29 20:34:23.420][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-29 20:34:23.421][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-29 20:34:23.423][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-29 20:34:23.424][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-29 20:34:23.426][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-29 20:34:23.427][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-29 20:34:23.428][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-29 20:34:23.430][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-29 20:34:23.436][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-29 20:34:23.438][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-29 20:34:23.441][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-29 20:34:23.442][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.444][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.483][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[2024-05-29 20:34:23.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.502][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[2024-05-29 20:34:23.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.526][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[2024-05-29 20:34:23.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.538][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[2024-05-29 20:34:23.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.544][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[2024-05-29 20:34:23.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:23.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:23.563][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-29 20:34:23.573][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:23.575][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.576][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.577][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.578][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:23.579][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.580][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-29 20:34:23.581][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.582][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.583][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-29 20:34:23.584][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:23.585][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.586][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-29 20:34:23.587][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-29 20:34:23.588][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-29 20:34:23.589][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:23.590][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-29 20:34:23.590][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-29 20:34:23.590][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-29 20:34:23.592][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-29 20:34:23.593][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:23.594][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:23.595][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:23.596][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:23.597][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:23.598][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:23.599][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-29 20:34:23.599][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-29 20:34:23.600][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:23.601][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:23.602][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:23.603][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:23.609][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-29 20:34:23.611][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-29 20:34:23.612][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-29 20:34:23.614][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-29 20:34:23.616][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-29 20:34:23.640][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:23.641][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-29 20:34:23.646][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:23.650][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-29 20:34:23.655][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:23.656][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:23.697][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-29 20:34:23.699][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-29 20:34:23.700][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-29 20:34:23.700][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-29 20:34:23.701][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:23.702][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:23.702][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-29 20:34:23.703][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-29 20:34:23.704][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:23.723][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-29 20:34:23.726][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:23.728][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:23.729][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-29 20:34:23.731][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:23.732][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-29 20:34:23.741][biodb::testThat]
biodb.INFO [2024-05-29 20:34:23.743][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-05-29 20:34:23.744][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:23.745][biodb::testThat]
biodb.TRACE[2024-05-29 20:34:23.749][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-05-29 20:34:23.751][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-29 20:34:23.755][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-29 20:34:23.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:23.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:23.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:23.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:23.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:23.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:23.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-29 20:34:23.786][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:23.787][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:23.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.789][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:23.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:23.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.806][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:23.807][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:23.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.809][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.834][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:23.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:23.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.838][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:23.839][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:23.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.841][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.843][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:23.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:23.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.847][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:23.848][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:23.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.849][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.851][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:23.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:23.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.855][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:23.856][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:23.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.858][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:23.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:23.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.870][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:23.871][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:23.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.873][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:23.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:23.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.879][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:23.880][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:23.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.881][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.883][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:23.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:23.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.887][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:23.888][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:23.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.890][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.891][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:23.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:23.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.895][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:23.896][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:23.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.898][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.899][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:23.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:23.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.903][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:23.904][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:23.905][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.906][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.907][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:23.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:23.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.911][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:23.912][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:23.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.914][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.915][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:23.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:23.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.919][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:23.920][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:23.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.922][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:23.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:23.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.927][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:23.928][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:23.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.930][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:23.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:23.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.935][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:23.937][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:23.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.939][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:23.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:23.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.944][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:23.945][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:23.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.947][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.949][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:23.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:23.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.953][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:23.954][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:23.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.956][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.957][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:23.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:23.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.961][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:23.962][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:23.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.964][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.965][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:23.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:23.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.969][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-29 20:34:23.971][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:23.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.972][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.974][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-29 20:34:23.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:23.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:23.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:23.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:23.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:23.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:23.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:23.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:23.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:23.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.034][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.039][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.043][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.047][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.050][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.054][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.082][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.086][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.089][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.093][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.097][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.101][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.105][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.108][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.112][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.117][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:24.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:24.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.121][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:24.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:24.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.125][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:24.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:24.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.128][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:24.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:24.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.132][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:24.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:24.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:24.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:24.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:24.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:24.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.144][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:24.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:24.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:24.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:24.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.168][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.172][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.176][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.180][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.184][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.203][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.211][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.215][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.219][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.222][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.226][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.230][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.234][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:24.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:24.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.238][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:24.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:24.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.241][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:24.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:24.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.245][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-29 20:34:24.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.260][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-29 20:34:24.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.290][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.298][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.306][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.310][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.318][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:24.345][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-29 20:34:24.348][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-29 20:34:24.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-29 20:34:24.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.352][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-29 20:34:24.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-29 20:34:24.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.356][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-29 20:34:24.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-29 20:34:24.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.359][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-29 20:34:24.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-29 20:34:24.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.388][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.422][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.426][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.432][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:24.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.466][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.467][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.469][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.482][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.487][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.491][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.495][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.496][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.498][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.499][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:24.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.526][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.527][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.529][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:24.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.548][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.555][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.561][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.568][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.569][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.572][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.574][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:24.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.601][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.603][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:24.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.616][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.620][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.624][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.628][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.629][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.637][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.638][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:24.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.653][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.658][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.662][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.663][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.665][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:24.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:24.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.678][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:24.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:24.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.682][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:24.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:24.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.686][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:24.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:24.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.690][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:24.691][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:24.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.693][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.694][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:24.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:24.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.706][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:24.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:24.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.710][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:24.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:24.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.714][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:24.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:24.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.717][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:24.719][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:24.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.720][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.721][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:24.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:24.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.733][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.737][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.741][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.745][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.746][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.748][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.749][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:24.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.773][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.774][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.775][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:24.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.793][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.798][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.802][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.806][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.807][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.809][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.810][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:24.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.822][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.826][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.830][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.834][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.835][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.837][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.838][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:24.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.850][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.854][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.858][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.862][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.863][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.865][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.866][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:24.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.877][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:24.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:24.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:24.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:24.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.885][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:24.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:24.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.889][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:24.890][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:24.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.892][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.893][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:24.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:24.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:24.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:24.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:24.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:24.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:24.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:24.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.916][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:24.917][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:24.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.919][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:24.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:24.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.950][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.951][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.953][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:24.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.966][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.970][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.974][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.978][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.979][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.981][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.982][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:24.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:24.993][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:24.994][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:24.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:24.996][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.000][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.001][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.003][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.007][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.009][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.010][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.015][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.017][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.022][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.023][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.025][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.029][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.030][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.032][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.036][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.037][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.039][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.043][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:25.044][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:25.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.046][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.050][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.051][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.053][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.057][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:25.058][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:25.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.060][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.064][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:25.065][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:25.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.067][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.076][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.077][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.079][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.084][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.085][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.087][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.091][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.092][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.094][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.098][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.099][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.101][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.105][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.107][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.108][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.113][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.114][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.116][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.120][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:25.121][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:25.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.123][ef$get] fields variable is a list.
biodb.INFO [2024-05-29 20:34:25.131][biodb::testThat]
biodb.INFO [2024-05-29 20:34:25.133][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-05-29 20:34:25.134][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:25.135][biodb::testThat]
biodb.DEBUG[2024-05-29 20:34:25.149][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-05-29 20:34:25.157][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-29 20:34:25.163][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:25.164][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-29 20:34:25.166][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-05-29 20:34:25.168][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-29 20:34:25.170][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-05-29 20:34:25.171][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-29 20:34:25.194][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-29 20:34:25.195][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-29 20:34:25.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:25.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:25.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:25.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:25.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:25.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:25.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-29 20:34:25.210][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.211][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.213][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.223][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.224][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.226][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.228][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.232][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.233][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.234][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.236][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.240][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.241][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.243][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.244][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.248][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.249][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.251][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.256][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.257][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.259][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.265][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.266][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.268][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.269][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.273][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.274][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.276][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.278][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.281][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.283][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.284][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.286][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.290][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.291][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.293][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.294][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.298][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:25.299][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:25.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.301][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.302][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:25.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:25.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.307][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:25.308][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:25.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.310][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:25.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:25.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.315][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.316][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.318][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.323][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.324][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.326][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.331][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.332][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.334][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.335][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.339][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.340][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.342][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.343][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.347][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:25.348][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:25.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.350][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.351][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:25.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:25.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.360][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-29 20:34:25.361][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:25.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.363][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.364][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-29 20:34:25.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:25.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.380][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.384][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.388][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:25.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.392][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.395][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.399][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:25.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:25.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:25.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.426][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.430][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.433][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:25.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.437][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.442][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.446][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:25.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:25.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:25.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.455][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:25.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:25.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.460][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:25.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:25.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.466][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.473][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.479][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.483][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:25.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:25.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.487][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:25.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:25.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.491][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:25.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:25.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:25.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:25.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:25.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:25.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.509][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:25.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:25.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.516][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.520][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.524][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.528][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.532][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:25.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:25.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.547][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.555][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.559][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.563][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.566][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:25.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.570][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.574][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.578][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.582][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:25.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:25.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.586][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:25.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:25.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.590][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:25.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:25.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.594][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-29 20:34:25.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.599][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.602][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.606][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.610][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-29 20:34:25.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:25.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.623][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.627][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.635][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:25.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:25.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.644][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:25.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:25.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.652][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:25.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:25.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:25.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:25.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:25.681][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-29 20:34:25.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-05-29 20:34:25.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-05-29 20:34:25.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-05-29 20:34:25.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-05-29 20:34:25.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-05-29 20:34:25.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-05-29 20:34:25.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-29 20:34:25.701][biodb::testThat]
biodb.INFO [2024-05-29 20:34:25.703][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-05-29 20:34:25.703][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:25.704][biodb::testThat]
biodb.TRACE[2024-05-29 20:34:25.707][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.710][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:25.712][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-05-29 20:34:25.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.742][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:25.753][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-05-29 20:34:25.755][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-05-29 20:34:25.756][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-29 20:34:25.757][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-29 20:34:25.758][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:25.760][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:25.761][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-29 20:34:25.763][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:25.764][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-29 20:34:25.765][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-29 20:34:25.766][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-29 20:34:25.767][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-29 20:34:25.768][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-29 20:34:25.769][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-29 20:34:25.770][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-29 20:34:25.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.789][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:25.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:25.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:25.793][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-29 20:34:25.794][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-29 20:34:25.795][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-05-29 20:34:25.807][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.808][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.810][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:25.811][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-05-29 20:34:25.823][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.827][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.831][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:25.837][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2024-05-29 20:34:25.887][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-29 20:34:25.888][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-05-29 20:34:25.889][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-05-29 20:34:25.907][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:25.909][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:25.910][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-29 20:34:25.911][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:25.912][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-29 20:34:25.927][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-29 20:34:25.928][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-29 20:34:25.929][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-29 20:34:25.930][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-29 20:34:25.931][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-29 20:34:25.932][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-29 20:34:25.934][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.937][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.941][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.945][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:25.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:25.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:25.949][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-29 20:34:25.950][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-29 20:34:25.951][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-05-29 20:34:25.962][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.963][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.965][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:25.966][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-05-29 20:34:25.977][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.982][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:25.985][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:25.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:25.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:25.992][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-05-29 20:34:25.993][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-05-29 20:34:25.994][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-05-29 20:34:25.995][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-05-29 20:34:25.997][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:25.998][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:26.000][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-29 20:34:26.001][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:26.002][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-29 20:34:26.003][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-29 20:34:26.004][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-29 20:34:26.005][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-29 20:34:26.006][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-29 20:34:26.007][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-29 20:34:26.008][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-29 20:34:26.010][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:26.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:26.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.014][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:26.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:26.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.018][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:26.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:26.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.022][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:26.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:26.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:26.026][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-29 20:34:26.027][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-29 20:34:26.028][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-05-29 20:34:26.046][biodb::testThat]
biodb.INFO [2024-05-29 20:34:26.047][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-05-29 20:34:26.048][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:26.049][biodb::testThat]
biodb.TRACE[2024-05-29 20:34:26.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:26.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:26.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.063][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:26.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:26.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.067][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:26.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:26.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:26.082][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-05-29 20:34:26.083][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-29 20:34:26.084][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-29 20:34:26.086][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:26.087][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:26.089][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-29 20:34:26.090][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:26.091][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-29 20:34:26.092][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-29 20:34:26.093][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-29 20:34:26.094][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-29 20:34:26.095][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-29 20:34:26.096][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-29 20:34:26.097][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-29 20:34:26.099][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:26.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:26.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:26.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:26.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.107][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:26.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:26.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:26.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:26.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:26.114][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-29 20:34:26.115][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-05-29 20:34:26.128][biodb::testThat]
biodb.INFO [2024-05-29 20:34:26.129][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-05-29 20:34:26.130][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:26.131][biodb::testThat]
biodb.TRACE[2024-05-29 20:34:26.150][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-29 20:34:26.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-29 20:34:26.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.154][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-29 20:34:26.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-29 20:34:26.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.158][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-29 20:34:26.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-29 20:34:26.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.162][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-29 20:34:26.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-29 20:34:26.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.210][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-29 20:34:26.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-29 20:34:26.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.214][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-29 20:34:26.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-29 20:34:26.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.218][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-29 20:34:26.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-29 20:34:26.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:26.222][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-29 20:34:26.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-29 20:34:26.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:26.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-29 20:34:26.277][biodb::testThat]
biodb.INFO [2024-05-29 20:34:26.278][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-05-29 20:34:26.279][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:26.280][biodb::testThat]
biodb.INFO [2024-05-29 20:34:26.288][biodb::testThat]
biodb.INFO [2024-05-29 20:34:26.289][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-05-29 20:34:26.290][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:26.291][biodb::testThat]
biodb.INFO [2024-05-29 20:34:26.299][biodb::testThat]
biodb.INFO [2024-05-29 20:34:26.300][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-05-29 20:34:26.301][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:26.302][biodb::testThat]
biodb.DEBUG[2024-05-29 20:34:26.305][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-05-29 20:34:28.133][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-05-29 20:34:28.208][biodb::testThat]
biodb.INFO [2024-05-29 20:34:28.211][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-05-29 20:34:28.214][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:28.216][biodb::testThat]
biodb.DEBUG[2024-05-29 20:34:28.505][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-05-29 20:34:28.536][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:28.542][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:28.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.551][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.554][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:28.557][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:28.560][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.562][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.564][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:28.566][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:28.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.569][ef$get] fields variable is a list.
biodb.INFO [2024-05-29 20:34:28.570][biodb::testThat]
biodb.INFO [2024-05-29 20:34:28.571][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-05-29 20:34:28.572][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:28.573][biodb::testThat]
biodb.DEBUG[2024-05-29 20:34:28.576][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-05-29 20:34:28.647][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-29 20:34:28.649][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:28.651][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-29 20:34:28.669][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-05-29 20:34:28.670][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-29 20:34:28.671][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-29 20:34:28.673][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-29 20:34:28.674][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:28.675][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-29 20:34:28.677][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-29 20:34:28.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:28.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:28.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:28.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:28.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:28.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:28.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-29 20:34:28.697][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:28.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:28.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.730][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:28.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:28.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:28.759][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-05-29 20:34:28.760][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-05-29 20:34:28.779][biodb::testThat]
biodb.INFO [2024-05-29 20:34:28.781][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-05-29 20:34:28.782][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:28.783][biodb::testThat]
biodb.DEBUG[2024-05-29 20:34:28.791][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-05-29 20:34:28.792][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-05-29 20:34:28.793][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-29 20:34:28.795][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:28.797][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-29 20:34:28.799][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-05-29 20:34:28.800][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-29 20:34:28.801][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-29 20:34:28.803][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-29 20:34:28.804][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:28.806][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-29 20:34:28.808][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-29 20:34:28.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:28.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:28.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:28.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:28.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:28.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:28.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-29 20:34:28.823][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:28.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:28.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.828][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:28.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:28.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:28.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:28.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:28.886][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-05-29 20:34:28.886][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-05-29 20:34:28.887][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-05-29 20:34:28.898][biodb::testThat]
biodb.INFO [2024-05-29 20:34:28.899][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-05-29 20:34:28.900][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:28.901][biodb::testThat]
biodb.INFO [2024-05-29 20:34:28.920][biodb::testThat]
biodb.INFO [2024-05-29 20:34:28.921][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-05-29 20:34:28.922][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:28.922][biodb::testThat]
biodb.DEBUG[2024-05-29 20:34:28.925][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:28.926][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:28.927][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-29 20:34:28.929][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:28.929][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-29 20:34:28.931][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-29 20:34:28.932][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-29 20:34:28.933][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-29 20:34:28.933][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-05-29 20:34:28.940][biodb::testThat]
biodb.INFO [2024-05-29 20:34:28.941][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-05-29 20:34:28.941][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:28.942][biodb::testThat]
biodb.DEBUG[2024-05-29 20:34:28.944][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:28.946][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:28.947][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-29 20:34:28.948][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:28.949][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-29 20:34:28.951][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-29 20:34:28.951][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-29 20:34:28.952][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-29 20:34:28.953][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-05-29 20:34:28.961][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:28.962][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:28.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.964][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.965][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:28.966][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:28.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.968][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:28.968][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:28.969][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:28.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:28.971][ef$get] fields variable is a list.
biodb.INFO [2024-05-29 20:34:28.972][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-29 20:34:28.973][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-29 20:34:28.986][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-29 20:34:28.987][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-29 20:34:28.988][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:28.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:28.990][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:28.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:28.992][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:28.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-29 20:34:28.996][biodb::testContext]
biodb.INFO [2024-05-29 20:34:28.997][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-29 20:34:28.998][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-05-29 20:34:28.999][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-29 20:34:28.999][biodb::testContext]
biodb.INFO [2024-05-29 20:34:29.003][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-29 20:34:29.005][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-05-29 20:34:29.008][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-29 20:34:29.009][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-29 20:34:29.010][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-29 20:34:29.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.014][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-29 20:34:29.015][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-29 20:34:29.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.018][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-29 20:34:29.019][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-29 20:34:29.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.023][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-29 20:34:29.024][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-29 20:34:29.025][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-29 20:34:29.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.028][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-29 20:34:29.029][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-29 20:34:29.030][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-29 20:34:29.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.033][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-29 20:34:29.034][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-29 20:34:29.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.038][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-29 20:34:29.039][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-29 20:34:29.040][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-29 20:34:29.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.043][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-29 20:34:29.044][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-29 20:34:29.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.047][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-29 20:34:29.048][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-29 20:34:29.049][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-29 20:34:29.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.053][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-29 20:34:29.053][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-29 20:34:29.054][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-29 20:34:29.055][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-29 20:34:29.056][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-29 20:34:29.057][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-29 20:34:29.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.060][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[2024-05-29 20:34:29.061][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-29 20:34:29.062][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-29 20:34:29.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.065][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-29 20:34:29.066][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-29 20:34:29.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.068][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[2024-05-29 20:34:29.069][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-29 20:34:29.070][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-29 20:34:29.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.074][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-29 20:34:29.075][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-29 20:34:29.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.077][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[2024-05-29 20:34:29.078][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-29 20:34:29.079][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-29 20:34:29.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.088][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-29 20:34:29.089][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-29 20:34:29.092][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-29 20:34:29.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.095][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-29 20:34:29.096][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-29 20:34:29.097][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-29 20:34:29.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.101][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-29 20:34:29.102][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.103][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-29 20:34:29.104][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.105][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:29.106][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.107][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.108][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.109][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.110][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-29 20:34:29.111][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:29.112][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.113][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-29 20:34:29.114][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:29.115][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.116][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.117][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-29 20:34:29.117][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-29 20:34:29.117][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-29 20:34:29.117][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-29 20:34:29.117][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-29 20:34:29.118][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:29.118][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:29.119][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:29.120][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:29.121][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:29.122][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:29.123][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.124][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.125][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:29.126][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:29.126][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.127][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.129][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-29 20:34:29.130][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.131][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-29 20:34:29.132][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.133][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:29.134][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.135][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.136][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.137][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.138][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-29 20:34:29.139][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:29.140][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.141][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-29 20:34:29.141][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:29.142][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.143][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.144][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-29 20:34:29.144][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-29 20:34:29.144][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-29 20:34:29.144][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-29 20:34:29.144][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-29 20:34:29.145][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:29.146][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:29.147][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:29.148][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:29.149][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:29.150][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:29.151][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.151][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.152][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:29.153][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:29.154][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.155][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.156][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-29 20:34:29.158][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.159][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-29 20:34:29.160][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.161][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:29.162][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.163][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.163][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.164][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.165][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-29 20:34:29.166][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:29.167][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.168][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-29 20:34:29.169][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:29.170][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.171][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.172][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.173][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:29.174][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:29.175][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:29.176][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:29.177][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:29.178][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:29.179][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.180][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.181][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:29.181][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:29.182][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.183][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.184][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-29 20:34:29.191][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.193][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-29 20:34:29.194][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.195][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:29.196][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.197][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.198][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.199][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.200][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-29 20:34:29.201][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:29.202][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.202][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-29 20:34:29.203][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:29.204][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.205][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.206][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.207][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:29.208][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:29.209][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:29.210][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:29.211][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:29.212][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:29.213][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.214][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.215][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:29.215][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:29.216][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.217][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.219][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-29 20:34:29.219][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.233][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[2024-05-29 20:34:29.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.251][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[2024-05-29 20:34:29.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.299][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.DEBUG[2024-05-29 20:34:29.300][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-29 20:34:29.302][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-29 20:34:29.303][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-29 20:34:29.304][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-29 20:34:29.305][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-29 20:34:29.307][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-29 20:34:29.308][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-29 20:34:29.309][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-29 20:34:29.311][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-29 20:34:29.312][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-29 20:34:29.313][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-29 20:34:29.315][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-29 20:34:29.316][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-29 20:34:29.317][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-29 20:34:29.319][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-29 20:34:29.320][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-29 20:34:29.321][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-29 20:34:29.323][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-29 20:34:29.324][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-29 20:34:29.325][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-29 20:34:29.327][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-29 20:34:29.328][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-29 20:34:29.330][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-29 20:34:29.331][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-29 20:34:29.332][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-29 20:34:29.334][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-29 20:34:29.335][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-29 20:34:29.336][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-29 20:34:29.338][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-29 20:34:29.339][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-29 20:34:29.340][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-29 20:34:29.342][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-29 20:34:29.343][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-29 20:34:29.344][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-29 20:34:29.346][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-29 20:34:29.347][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-29 20:34:29.348][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-29 20:34:29.350][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-29 20:34:29.351][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-29 20:34:29.353][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-29 20:34:29.354][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-29 20:34:29.356][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-29 20:34:29.357][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-29 20:34:29.358][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-29 20:34:29.360][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-29 20:34:29.361][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-29 20:34:29.362][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-29 20:34:29.364][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-29 20:34:29.365][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-29 20:34:29.366][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-29 20:34:29.368][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-29 20:34:29.369][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-29 20:34:29.370][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-29 20:34:29.372][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-29 20:34:29.373][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-29 20:34:29.374][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-29 20:34:29.376][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-29 20:34:29.377][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-29 20:34:29.379][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-29 20:34:29.380][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-29 20:34:29.381][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-29 20:34:29.383][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-29 20:34:29.384][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-29 20:34:29.386][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-29 20:34:29.387][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-29 20:34:29.389][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-29 20:34:29.390][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-29 20:34:29.391][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-29 20:34:29.393][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-29 20:34:29.394][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-29 20:34:29.402][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-29 20:34:29.404][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-29 20:34:29.406][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-29 20:34:29.407][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-29 20:34:29.408][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-29 20:34:29.409][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-29 20:34:29.411][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-29 20:34:29.412][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-29 20:34:29.413][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-29 20:34:29.415][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-29 20:34:29.416][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-29 20:34:29.417][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-29 20:34:29.418][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-29 20:34:29.420][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-29 20:34:29.421][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-29 20:34:29.422][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-29 20:34:29.423][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.425][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.526][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[2024-05-29 20:34:29.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:29.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:29.533][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-29 20:34:29.535][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:29.537][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.538][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.539][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.540][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:29.541][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.542][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-29 20:34:29.543][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.543][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.544][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-29 20:34:29.545][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:29.546][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.547][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-29 20:34:29.548][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-29 20:34:29.549][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-29 20:34:29.551][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:29.552][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-29 20:34:29.552][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-29 20:34:29.552][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-29 20:34:29.553][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-29 20:34:29.553][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:29.554][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:29.555][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:29.556][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:29.557][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:29.558][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:29.559][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-29 20:34:29.559][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-29 20:34:29.560][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:29.561][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:29.562][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:29.563][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:29.564][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-29 20:34:29.566][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-29 20:34:29.567][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-29 20:34:29.569][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-29 20:34:29.570][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-29 20:34:29.574][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:29.575][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-29 20:34:29.576][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:29.577][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-29 20:34:29.578][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:29.579][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:29.581][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-29 20:34:29.582][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-29 20:34:29.583][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-29 20:34:29.583][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-29 20:34:29.584][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:29.585][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:29.585][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-29 20:34:29.586][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-29 20:34:29.587][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:29.589][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-29 20:34:29.590][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:29.591][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:29.592][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-29 20:34:29.593][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:29.594][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-29 20:34:29.595][biodb::testThat]
biodb.INFO [2024-05-29 20:34:29.596][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-05-29 20:34:29.597][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:29.598][biodb::testThat]
biodb.DEBUG[2024-05-29 20:34:29.602][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:29.603][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:29.609][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-29 20:34:29.610][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:29.611][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-29 20:34:29.613][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-29 20:34:29.613][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-29 20:34:29.614][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-29 20:34:29.615][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-29 20:34:29.618][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-05-29 20:34:29.623][biodb::testThat]
biodb.INFO [2024-05-29 20:34:29.623][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-05-29 20:34:29.624][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:29.625][biodb::testThat]
biodb.DEBUG[2024-05-29 20:34:29.627][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-05-29 20:34:29.628][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-29 20:34:29.629][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:29.631][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-29 20:34:29.633][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-05-29 20:34:29.634][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-29 20:34:29.636][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-05-29 20:34:29.637][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-29 20:34:29.638][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-29 20:34:29.639][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-29 20:34:29.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:29.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:29.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:29.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:29.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:29.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:29.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-29 20:34:29.652][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:29.653][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:29.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.655][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:29.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:29.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.661][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:29.662][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:29.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.663][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.665][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:29.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:29.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.669][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:29.670][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:29.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.671][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.673][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:29.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:29.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.677][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:29.678][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:29.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.680][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.681][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:29.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:29.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.685][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:29.686][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:29.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.687][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:29.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:29.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.693][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:29.694][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:29.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.695][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:29.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:29.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.701][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:29.702][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:29.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.703][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.705][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:29.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:29.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.709][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:29.710][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:29.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.711][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.717][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:29.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:29.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.722][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:29.723][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:29.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.724][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.726][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:29.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:29.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.729][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:29.730][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:29.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.732][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.733][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:29.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:29.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.737][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:29.738][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:29.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.740][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.741][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:29.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:29.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.745][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:29.746][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:29.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.748][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:29.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:29.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.753][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:29.754][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:29.755][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.756][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.757][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:29.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:29.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.761][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:29.762][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:29.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.764][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:29.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:29.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.769][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:29.770][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:29.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.772][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:29.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:29.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.777][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:29.778][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:29.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.780][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.781][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:29.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:29.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.785][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:29.786][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:29.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.788][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:29.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:29.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.793][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-29 20:34:29.794][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:29.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.796][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.797][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-29 20:34:29.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:29.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:29.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:29.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:29.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:29.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:29.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:29.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.813][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:29.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:29.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.817][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:29.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:29.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.826][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:29.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:29.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.830][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:29.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:29.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.834][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:29.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:29.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.838][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:29.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:29.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:29.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:29.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:29.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:29.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:29.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:29.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:29.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:29.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:29.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:29.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:29.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:29.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.864][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:29.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:29.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.868][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:29.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:29.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.872][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:29.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:29.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.876][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:29.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:29.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.879][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:29.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:29.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.883][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:29.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:29.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.887][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:29.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:29.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.891][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:29.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:29.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.895][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:29.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:29.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.899][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:29.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:29.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.903][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:29.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:29.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.907][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:29.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:29.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.910][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:29.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:29.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.914][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:29.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:29.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.918][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:29.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:29.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.927][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:29.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:29.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:29.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:29.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:29.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:29.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:29.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:29.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:29.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:29.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:29.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:29.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:29.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:29.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.954][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:29.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:29.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.958][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:29.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:29.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:29.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:29.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:29.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:29.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:29.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:29.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:29.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:29.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.977][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:29.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:29.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:29.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:29.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.984][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:29.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:29.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.988][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:29.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:29.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.992][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:29.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:29.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.996][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:29.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:29.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:29.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:29.999][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:30.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:30.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.007][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:30.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:30.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:30.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:30.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.016][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:30.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:30.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.020][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:30.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:30.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.025][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-29 20:34:30.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.060][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-29 20:34:30.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.065][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:30.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:30.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.069][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:30.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:30.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:30.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:30.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.078][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:30.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:30.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:30.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:30.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.086][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:30.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:30.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.090][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:30.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:30.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.099][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:30.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:30.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:30.127][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-05-29 20:34:30.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-29 20:34:30.145][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-29 20:34:30.146][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-29 20:34:30.147][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-29 20:34:30.148][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-29 20:34:30.149][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.151][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.152][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-29 20:34:30.162][biodb::testContext]
biodb.INFO [2024-05-29 20:34:30.163][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-29 20:34:30.164][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-05-29 20:34:30.165][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-29 20:34:30.165][biodb::testContext]
biodb.INFO [2024-05-29 20:34:30.169][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-29 20:34:30.171][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-05-29 20:34:30.174][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-29 20:34:30.175][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-29 20:34:30.176][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-29 20:34:30.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.180][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-29 20:34:30.181][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-29 20:34:30.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.184][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-29 20:34:30.185][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-29 20:34:30.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.188][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[2024-05-29 20:34:30.189][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-29 20:34:30.190][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-29 20:34:30.191][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-29 20:34:30.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.194][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-29 20:34:30.195][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-29 20:34:30.196][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-29 20:34:30.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.200][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-29 20:34:30.201][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-29 20:34:30.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.204][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-29 20:34:30.205][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-29 20:34:30.206][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-29 20:34:30.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.209][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[2024-05-29 20:34:30.210][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-29 20:34:30.211][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-29 20:34:30.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.214][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-29 20:34:30.215][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-29 20:34:30.216][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-29 20:34:30.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.220][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-29 20:34:30.221][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-29 20:34:30.222][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-29 20:34:30.222][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-29 20:34:30.223][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-29 20:34:30.224][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-29 20:34:30.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.228][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-29 20:34:30.229][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-29 20:34:30.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.232][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-29 20:34:30.233][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-29 20:34:30.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.237][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-29 20:34:30.238][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-29 20:34:30.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.241][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-29 20:34:30.242][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-29 20:34:30.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.246][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-29 20:34:30.247][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-29 20:34:30.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.250][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-29 20:34:30.251][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-29 20:34:30.254][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-29 20:34:30.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.258][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-29 20:34:30.259][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-29 20:34:30.260][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-29 20:34:30.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.269][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-29 20:34:30.271][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.272][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-29 20:34:30.273][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.273][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:30.274][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.275][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.276][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.277][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.278][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-29 20:34:30.279][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:30.280][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.281][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-29 20:34:30.282][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:30.283][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.284][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.285][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-29 20:34:30.285][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-29 20:34:30.285][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-29 20:34:30.285][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-29 20:34:30.285][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-29 20:34:30.286][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:30.287][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:30.288][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:30.289][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:30.290][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:30.290][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:30.291][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.292][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.293][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:30.294][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:30.295][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.296][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.297][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-29 20:34:30.299][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.300][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-29 20:34:30.301][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.302][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:30.303][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.304][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.305][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.305][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.306][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-29 20:34:30.307][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:30.308][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.309][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-29 20:34:30.310][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:30.311][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.312][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.313][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-29 20:34:30.313][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-29 20:34:30.313][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-29 20:34:30.313][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-29 20:34:30.313][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-29 20:34:30.314][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:30.315][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:30.316][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:30.317][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:30.318][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:30.319][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:30.320][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.321][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.322][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:30.322][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:30.323][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.324][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.326][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-29 20:34:30.327][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.328][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-29 20:34:30.329][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.330][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:30.331][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.332][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.333][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.334][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.335][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-29 20:34:30.336][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:30.337][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.338][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-29 20:34:30.339][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:30.340][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.341][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.342][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.343][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:30.344][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:30.345][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:30.345][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:30.346][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:30.347][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:30.348][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.349][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.350][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:30.351][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:30.352][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.353][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.354][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-29 20:34:30.356][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.356][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-29 20:34:30.357][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.358][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:30.359][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.360][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.361][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.362][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.368][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-29 20:34:30.369][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:30.371][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.372][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-29 20:34:30.372][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:30.373][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.374][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.375][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.376][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-29 20:34:30.377][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:30.378][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:30.379][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:30.380][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:30.381][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:30.381][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.382][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.383][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:30.384][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:30.385][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.386][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.387][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-29 20:34:30.388][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.432][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[2024-05-29 20:34:30.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.458][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[2024-05-29 20:34:30.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.469][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-29 20:34:30.470][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-29 20:34:30.472][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-29 20:34:30.473][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-29 20:34:30.475][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-29 20:34:30.476][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-29 20:34:30.477][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-29 20:34:30.479][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-29 20:34:30.480][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-29 20:34:30.481][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-29 20:34:30.483][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-29 20:34:30.484][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-29 20:34:30.485][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-29 20:34:30.487][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-29 20:34:30.488][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-29 20:34:30.489][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-29 20:34:30.491][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-29 20:34:30.492][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-29 20:34:30.493][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-29 20:34:30.495][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-29 20:34:30.496][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-29 20:34:30.498][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-29 20:34:30.499][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-29 20:34:30.500][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-29 20:34:30.502][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-29 20:34:30.503][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-29 20:34:30.505][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-29 20:34:30.506][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-29 20:34:30.508][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-29 20:34:30.509][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-29 20:34:30.510][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-29 20:34:30.512][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-29 20:34:30.513][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-29 20:34:30.515][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-29 20:34:30.516][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-29 20:34:30.517][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-29 20:34:30.519][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-29 20:34:30.520][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-29 20:34:30.522][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-29 20:34:30.523][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-29 20:34:30.525][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-29 20:34:30.526][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-29 20:34:30.527][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-29 20:34:30.529][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-29 20:34:30.530][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-29 20:34:30.531][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-29 20:34:30.533][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-29 20:34:30.534][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-29 20:34:30.536][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-29 20:34:30.537][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-29 20:34:30.538][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-29 20:34:30.540][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-29 20:34:30.541][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-29 20:34:30.542][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-29 20:34:30.544][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-29 20:34:30.545][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-29 20:34:30.547][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-29 20:34:30.548][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-29 20:34:30.549][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-29 20:34:30.551][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-29 20:34:30.552][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-29 20:34:30.554][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-29 20:34:30.555][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-29 20:34:30.556][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-29 20:34:30.558][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-29 20:34:30.559][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-29 20:34:30.560][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-29 20:34:30.562][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-29 20:34:30.563][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-29 20:34:30.565][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-29 20:34:30.572][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-29 20:34:30.574][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-29 20:34:30.575][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-29 20:34:30.576][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-29 20:34:30.578][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-29 20:34:30.579][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-29 20:34:30.580][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-29 20:34:30.582][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-29 20:34:30.583][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-29 20:34:30.585][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-29 20:34:30.586][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-29 20:34:30.587][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-29 20:34:30.589][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-29 20:34:30.590][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-29 20:34:30.592][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-29 20:34:30.593][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-29 20:34:30.594][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.596][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-29 20:34:30.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:30.713][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-29 20:34:30.714][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:30.716][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.717][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.718][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.719][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-29 20:34:30.720][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.721][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-29 20:34:30.723][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.724][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.725][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-29 20:34:30.726][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-29 20:34:30.727][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.728][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-29 20:34:30.729][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-29 20:34:30.730][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-29 20:34:30.731][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-29 20:34:30.732][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-29 20:34:30.732][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-29 20:34:30.732][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-29 20:34:30.733][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-29 20:34:30.734][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:30.735][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:30.736][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-29 20:34:30.737][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-29 20:34:30.738][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-29 20:34:30.739][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-29 20:34:30.740][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-29 20:34:30.740][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-29 20:34:30.741][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:30.742][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:30.742][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-29 20:34:30.743][self$setPropertyValue]
biodb.DEBUG[2024-05-29 20:34:30.745][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-29 20:34:30.746][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-29 20:34:30.748][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-29 20:34:30.750][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-29 20:34:30.752][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-29 20:34:30.755][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:30.756][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-29 20:34:30.757][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:30.758][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-29 20:34:30.760][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:30.761][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:30.762][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-29 20:34:30.763][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-29 20:34:30.764][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-29 20:34:30.764][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-29 20:34:30.765][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-29 20:34:30.766][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-29 20:34:30.767][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-29 20:34:30.767][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-29 20:34:30.768][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-29 20:34:30.770][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-29 20:34:30.771][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:30.772][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:30.773][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.19-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-29 20:34:30.774][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-29 20:34:30.775][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-29 20:34:30.781][biodb::testThat]
biodb.INFO [2024-05-29 20:34:30.783][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-05-29 20:34:30.784][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-29 20:34:30.785][biodb::testThat]
biodb.DEBUG[2024-05-29 20:34:30.787][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-29 20:34:30.787][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-05-29 20:34:30.788][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-05-29 20:34:30.791][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:30.793][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:30.794][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-29 20:34:30.795][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:30.796][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-29 20:34:30.798][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-29 20:34:30.799][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-29 20:34:30.800][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-29 20:34:30.800][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-29 20:34:30.801][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-29 20:34:30.802][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-05-29 20:34:30.804][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-05-29 20:34:30.805][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-29 20:34:30.807][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:30.808][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-29 20:34:30.810][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-05-29 20:34:30.811][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-29 20:34:30.813][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-05-29 20:34:30.814][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-29 20:34:30.815][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-29 20:34:30.816][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-29 20:34:30.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:30.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:30.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:30.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:30.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:30.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:30.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-29 20:34:30.830][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.832][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.833][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.839][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:30.840][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:30.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.841][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.843][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:30.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:30.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.847][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:30.848][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:30.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.850][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.851][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:30.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:30.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.855][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:30.856][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:30.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.858][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.859][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:30.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:30.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.863][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:30.864][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:30.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.866][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:30.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:30.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.871][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:30.872][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:30.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.874][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:30.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:30.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.879][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:30.880][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:30.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.882][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.884][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:30.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:30.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.893][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:30.894][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:30.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.896][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.897][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:30.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:30.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.901][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:30.902][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:30.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.904][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.905][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:30.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:30.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.909][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:30.910][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:30.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.912][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.913][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:30.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:30.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.917][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:30.918][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:30.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.920][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.921][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:30.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:30.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.925][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:30.926][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:30.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.928][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:30.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:30.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.933][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.934][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.936][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:30.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.941][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:30.942][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:30.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.944][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:30.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:30.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.950][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:30.951][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:30.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.952][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.954][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:30.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:30.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.957][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:30.958][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:30.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.960][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.961][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:30.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:30.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.965][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:30.966][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:30.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.968][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:30.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:30.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.973][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-29 20:34:30.974][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:30.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.976][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.978][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-29 20:34:30.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:30.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:30.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:30.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:30.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:30.998][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:30.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.002][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.005][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.009][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.013][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.017][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.043][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.047][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.051][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.054][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.058][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.062][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.066][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.069][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.073][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.077][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.081][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.093][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.099][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:31.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:31.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.103][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:31.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:31.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.107][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:31.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:31.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:31.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:31.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:31.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:31.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:31.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:31.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.133][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.137][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.141][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.167][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.171][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.175][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.179][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.183][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.186][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.190][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:31.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:31.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.199][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:31.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:31.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.204][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:31.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:31.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.208][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-29 20:34:31.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.223][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-29 20:34:31.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.236][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.243][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.247][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.251][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.259][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:31.285][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-29 20:34:31.286][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.290][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.294][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.303][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:31.308][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-29 20:34:31.309][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-29 20:34:31.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:31.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:31.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:31.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:31.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:31.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:31.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:31.320][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-05-29 20:34:31.321][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-29 20:34:31.323][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:31.324][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-29 20:34:31.326][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-05-29 20:34:31.327][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-29 20:34:31.329][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-05-29 20:34:31.330][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-29 20:34:31.331][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-29 20:34:31.332][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-29 20:34:31.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:31.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:31.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:31.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:31.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:31.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:31.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-29 20:34:31.345][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.346][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.348][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.353][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.354][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.356][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.357][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.361][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.362][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.364][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.365][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.369][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.370][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.372][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.373][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.380][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.385][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.386][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.388][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.393][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.394][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.396][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.397][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.401][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.402][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.404][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.405][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.414][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.415][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.417][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.419][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.423][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.424][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.426][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.427][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.431][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:31.432][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:31.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.434][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.435][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:31.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:31.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.439][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:31.440][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:31.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.442][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.443][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:31.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:31.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.447][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.448][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.450][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.455][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.456][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.458][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.463][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.464][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.466][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.471][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.472][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.474][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.475][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.479][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:31.480][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:31.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.482][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.483][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:31.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:31.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.487][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-29 20:34:31.488][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.490][ef$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.491][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-29 20:34:31.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.507][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.511][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.519][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-29 20:34:31.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.524][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.528][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.531][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-29 20:34:31.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-29 20:34:31.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-29 20:34:31.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.558][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.561][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.565][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-29 20:34:31.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.569][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.573][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.576][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-29 20:34:31.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.580][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.584][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.588][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-29 20:34:31.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.592][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.595][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.599][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:31.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:31.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.607][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:31.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:31.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.611][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-29 20:34:31.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-29 20:34:31.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:31.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:31.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:31.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:31.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-29 20:34:31.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-29 20:34:31.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.643][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.647][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.651][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-29 20:34:31.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-29 20:34:31.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.677][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.681][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.685][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-29 20:34:31.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.689][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.692][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.696][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-29 20:34:31.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.704][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:31.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:31.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.708][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:31.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:31.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.712][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-29 20:34:31.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-29 20:34:31.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.717][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-29 20:34:31.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.753][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-29 20:34:31.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-29 20:34:31.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.763][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.771][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-29 20:34:31.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-29 20:34:31.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.780][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.785][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.793][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-29 20:34:31.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-29 20:34:31.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-29 20:34:31.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:31.821][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-05-29 20:34:31.822][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.826][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.830][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.834][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:31.838][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-29 20:34:31.839][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-05-29 20:34:31.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:31.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:31.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:31.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:31.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:31.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:31.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:31.859][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-29 20:34:31.860][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-05-29 20:34:31.861][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-05-29 20:34:31.863][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:31.864][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:31.866][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-29 20:34:31.867][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:31.868][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-29 20:34:31.869][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-29 20:34:31.870][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-29 20:34:31.871][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-29 20:34:31.872][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-29 20:34:31.873][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-29 20:34:31.874][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-29 20:34:31.875][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.879][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.883][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.887][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.891][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.895][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.898][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:31.902][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-29 20:34:31.903][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-29 20:34:31.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:31.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:31.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:31.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:31.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:31.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:31.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-29 20:34:31.914][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.918][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.922][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.926][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.929][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.933][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.937][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:31.941][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-05-29 20:34:31.942][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-29 20:34:31.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:31.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:31.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:31.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:31.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:31.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:31.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-29 20:34:31.961][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-29 20:34:31.963][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-05-29 20:34:31.964][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-05-29 20:34:31.966][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:31.967][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:31.969][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-29 20:34:31.970][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-29 20:34:31.971][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-29 20:34:31.972][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-29 20:34:31.973][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-29 20:34:31.974][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-29 20:34:31.975][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-29 20:34:31.976][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-29 20:34:31.977][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-29 20:34:31.979][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.982][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.986][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.990][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.994][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:31.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:31.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:31.998][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:31.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:32.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:32.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:32.001][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:32.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:32.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:32.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:32.005][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-05-29 20:34:32.006][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-05-29 20:34:32.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:32.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:32.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:32.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:32.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:32.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:32.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-29 20:34:32.017][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:32.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:32.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:32.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:32.021][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:32.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:32.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:32.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:32.024][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:32.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:32.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:32.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:32.028][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:32.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:32.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:32.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:32.032][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:32.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:32.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:32.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:32.036][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:32.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:32.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:32.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-29 20:34:32.040][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-29 20:34:32.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-29 20:34:32.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-29 20:34:32.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-29 20:34:32.044][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-29 20:34:32.044][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-29 20:34:32.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-29 20:34:32.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:32.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:32.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:32.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:32.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:32.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-29 20:34:32.065][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-29 20:34:32.066][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-29 20:34:32.068][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-29 20:34:32.069][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-29 20:34:32.070][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-29 20:34:32.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-29 20:34:32.072][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-29 20:34:32.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-29 20:34:32.073][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-29 20:34:32.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
8.967 0.507 11.382