Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-04-13 12:05:07 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 4137
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

CHECK results for biodbHmdb on nebbiolo2


To the developers/maintainers of the biodbHmdb package:
- Please 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 How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 177/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbHmdb 1.0.3  (landing page)
Pierrick Roger
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_14
git_last_commit: b0dabfe
git_last_commit_date: 2021-11-24 05:04:38 -0400 (Wed, 24 Nov 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: biodbHmdb
Version: 1.0.3
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings biodbHmdb_1.0.3.tar.gz
StartedAt: 2022-04-12 06:34:35 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 06:35:28 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 53.3 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbHmdb.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings biodbHmdb_1.0.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.0.3’
* 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 ... OK
* checking installed package size ... NOTE
  installed size is  9.8Mb
  sub-directories of 1Mb or more:
    libs   9.2Mb
* 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 R 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 dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* 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 ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.14-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.

Installation output

biodbHmdb.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c Tag.cpp -o Tag.o
g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c test-100-tag.cpp -o test-100-tag.o
g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/testthat/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c test-runner.cpp -o test-runner.o
g++ -std=gnu++14 -shared -L/home/biocbuild/bbs-3.14-bioc/R/lib -L/usr/local/lib -o biodbHmdb.so RcppExports.o Tag.o extractXmlEntries.o test-100-tag.o test-runner.o -L/home/biocbuild/bbs-3.14-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.14-bioc/R/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** 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)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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 [2022-04-12 06:35:14.463][biodb::testContext] 
biodb.INFO [2022-04-12 06:35:14.466][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:35:14.467][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2022-04-12 06:35:14.468][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:35:14.469][biodb::testContext] 
biodb.INFO [2022-04-12 06:35:14.471][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:14.472][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2022-04-12 06:35:14.473][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:14.474][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:14.579][biodb::testContext] 
biodb.INFO [2022-04-12 06:35:14.581][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:35:14.582][biodb::testContext] Test context - Generic tests
biodb.INFO [2022-04-12 06:35:14.583][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:35:14.584][biodb::testContext] 
biodb.INFO [2022-04-12 06:35:14.609][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:35:14.611][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-04-12 06:35:14.619][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:14.621][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-04-12 06:35:14.622][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-04-12 06:35:14.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.625][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-04-12 06:35:14.645][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-04-12 06:35:14.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.649][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.DEBUG[2022-04-12 06:35:14.650][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-04-12 06:35:14.651][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-04-12 06:35:14.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.654][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-04-12 06:35:14.655][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-04-12 06:35:14.657][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-04-12 06:35:14.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.660][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-04-12 06:35:14.661][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-04-12 06:35:14.662][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-04-12 06:35:14.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.666][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-04-12 06:35:14.667][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-04-12 06:35:14.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.671][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-04-12 06:35:14.672][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-04-12 06:35:14.673][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-04-12 06:35:14.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.677][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-04-12 06:35:14.678][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-04-12 06:35:14.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.680][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[2022-04-12 06:35:14.681][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-04-12 06:35:14.682][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-04-12 06:35:14.683][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-04-12 06:35:14.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.687][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:35:14.688][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-04-12 06:35:14.689][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-04-12 06:35:14.690][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-04-12 06:35:14.691][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-04-12 06:35:14.692][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-04-12 06:35:14.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.696][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-04-12 06:35:14.697][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-04-12 06:35:14.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.712][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-04-12 06:35:14.713][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-04-12 06:35:14.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.717][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-04-12 06:35:14.718][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-04-12 06:35:14.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.721][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-04-12 06:35:14.722][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-04-12 06:35:14.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.726][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-04-12 06:35:14.727][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-04-12 06:35:14.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.730][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:35:14.731][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-04-12 06:35:14.736][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-04-12 06:35:14.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.740][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-04-12 06:35:14.741][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-04-12 06:35:14.742][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-04-12 06:35:14.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.749][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-04-12 06:35:14.785][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.801][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-04-12 06:35:14.802][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.803][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:14.804][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.805][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.806][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.807][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.808][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:35:14.809][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:14.809][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.810][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-04-12 06:35:14.811][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:14.812][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.813][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.814][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:14.814][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:35:14.814][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:35:14.814][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:35:14.814][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:35:14.815][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:14.816][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:14.817][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:14.818][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:14.818][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:14.819][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:14.820][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.821][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.822][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:14.823][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:14.824][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.825][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.826][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-04-12 06:35:14.828][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.829][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:35:14.830][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.831][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:14.832][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.832][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.833][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.834][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.835][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:35:14.836][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:14.837][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.838][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-04-12 06:35:14.839][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:14.840][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.840][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.841][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:14.841][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:35:14.841][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:35:14.841][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:35:14.841][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:35:14.842][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:14.843][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:14.844][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:14.845][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:14.846][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:14.846][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:14.847][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.848][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.849][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:14.850][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:14.851][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.852][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.853][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-04-12 06:35:14.854][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.855][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-04-12 06:35:14.856][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.857][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:14.858][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.859][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.860][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.861][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.861][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:35:14.862][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:14.863][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.864][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-04-12 06:35:14.865][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:14.866][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.867][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.868][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.869][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:14.870][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:14.871][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:14.872][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:14.873][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:14.874][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:14.874][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.875][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.876][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:14.877][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:14.878][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.879][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.880][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-04-12 06:35:14.882][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.883][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:35:14.884][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.885][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:14.886][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.887][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.888][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.889][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.889][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:35:14.890][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:14.891][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.892][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-04-12 06:35:14.893][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:14.894][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.895][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:14.896][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.897][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:14.898][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:14.899][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:14.899][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:14.900][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:14.901][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:14.902][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:14.903][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.904][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:14.905][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:14.906][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:14.906][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:14.910][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:14.911][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:14.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:14.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:14.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:14.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:14.986][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-04-12 06:35:14.991][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-04-12 06:35:14.992][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-04-12 06:35:14.994][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-04-12 06:35:14.995][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-04-12 06:35:14.996][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-04-12 06:35:14.998][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-04-12 06:35:14.999][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-04-12 06:35:15.000][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-04-12 06:35:15.001][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-04-12 06:35:15.003][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-04-12 06:35:15.004][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-04-12 06:35:15.005][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-04-12 06:35:15.006][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-04-12 06:35:15.008][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-04-12 06:35:15.009][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:35:15.011][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-04-12 06:35:15.012][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-04-12 06:35:15.013][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-04-12 06:35:15.015][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-04-12 06:35:15.016][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-04-12 06:35:15.017][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-04-12 06:35:15.018][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-04-12 06:35:15.020][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-04-12 06:35:15.021][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-04-12 06:35:15.022][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-04-12 06:35:15.023][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-04-12 06:35:15.025][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-04-12 06:35:15.026][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-04-12 06:35:15.027][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-04-12 06:35:15.029][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-04-12 06:35:15.030][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-04-12 06:35:15.031][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-04-12 06:35:15.032][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-04-12 06:35:15.033][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-04-12 06:35:15.035][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-04-12 06:35:15.036][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-04-12 06:35:15.037][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-04-12 06:35:15.039][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-04-12 06:35:15.040][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-04-12 06:35:15.041][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-04-12 06:35:15.042][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-04-12 06:35:15.044][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-04-12 06:35:15.045][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-04-12 06:35:15.046][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-04-12 06:35:15.047][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-04-12 06:35:15.049][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-04-12 06:35:15.050][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-04-12 06:35:15.051][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-04-12 06:35:15.052][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-04-12 06:35:15.054][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-04-12 06:35:15.055][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-04-12 06:35:15.056][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-04-12 06:35:15.057][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-04-12 06:35:15.058][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-04-12 06:35:15.060][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-04-12 06:35:15.061][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-04-12 06:35:15.062][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-04-12 06:35:15.064][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-04-12 06:35:15.065][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-04-12 06:35:15.066][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-04-12 06:35:15.067][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-04-12 06:35:15.069][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-04-12 06:35:15.070][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-04-12 06:35:15.071][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-04-12 06:35:15.072][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-04-12 06:35:15.074][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-04-12 06:35:15.075][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-04-12 06:35:15.076][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-04-12 06:35:15.077][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-04-12 06:35:15.079][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-04-12 06:35:15.080][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-04-12 06:35:15.081][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-04-12 06:35:15.082][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-04-12 06:35:15.084][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-04-12 06:35:15.085][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-04-12 06:35:15.086][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-04-12 06:35:15.087][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-04-12 06:35:15.088][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-04-12 06:35:15.090][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-04-12 06:35:15.091][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-04-12 06:35:15.092][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-04-12 06:35:15.093][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-04-12 06:35:15.099][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-04-12 06:35:15.101][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:35:15.105][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:15.105][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.107][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:15.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:15.212][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-04-12 06:35:15.221][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:15.222][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:15.223][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-04-12 06:35:15.224][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:15.225][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:15.226][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:15.227][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-04-12 06:35:15.228][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:15.229][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:15.229][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-04-12 06:35:15.230][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:15.231][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:15.232][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-04-12 06:35:15.233][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-04-12 06:35:15.234][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-04-12 06:35:15.235][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:15.236][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:15.236][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-04-12 06:35:15.236][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-04-12 06:35:15.237][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:15.238][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:15.239][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:15.240][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:15.241][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:15.241][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:15.242][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-04-12 06:35:15.242][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-04-12 06:35:15.243][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:15.244][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:15.245][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:15.246][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:15.251][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-04-12 06:35:15.252][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-04-12 06:35:15.254][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-04-12 06:35:15.255][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:35:15.279][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:15.280][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-04-12 06:35:15.285][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:15.289][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-04-12 06:35:15.293][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:15.294][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:15.296][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-04-12 06:35:15.296][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-04-12 06:35:15.297][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-04-12 06:35:15.297][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-04-12 06:35:15.298][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:15.299][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:15.300][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-04-12 06:35:15.301][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-04-12 06:35:15.302][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:15.317][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-04-12 06:35:15.318][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:15.319][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:15.320][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2022-04-12 06:35:15.321][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:15.322][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-04-12 06:35:15.356][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:15.357][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2022-04-12 06:35:15.358][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:15.358][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:15.363][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2022-04-12 06:35:15.374][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-04-12 06:35:15.378][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-04-12 06:35:15.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:15.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:15.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:15.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:15.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:15.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:15.394][FUN] Functions in observer BiodbConfig: [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[2022-04-12 06:35:15.406][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:15.407][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:15.408][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.409][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:15.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:15.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.434][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:15.435][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:15.436][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.437][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.470][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:15.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:15.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.484][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:15.485][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:15.486][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.486][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.488][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:15.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:15.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:15.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:15.502][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.502][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:15.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:15.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.515][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:15.516][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:15.517][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.518][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:15.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:15.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.532][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:15.533][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:15.534][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.534][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.536][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:15.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:15.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.548][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:15.550][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:15.551][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.552][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.553][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:15.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:15.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.567][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:15.568][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:15.569][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.570][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.572][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:15.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:15.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.585][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:15.586][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:15.587][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.588][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.590][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:15.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:15.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.604][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:15.606][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:15.607][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.608][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.609][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:15.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:15.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.622][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:15.623][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:15.624][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.625][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:15.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:15.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.639][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.640][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.641][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.642][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.656][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:15.657][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:15.658][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.659][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:15.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:15.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.676][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:15.677][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:15.678][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.679][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.680][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:15.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:15.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.692][ef$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:15.693][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:15.694][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.695][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.696][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:15.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:15.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.708][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:15.709][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:15.710][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.711][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.712][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:15.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:15.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.725][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-04-12 06:35:15.726][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:15.727][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.728][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.729][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-04-12 06:35:15.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:15.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:15.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:15.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:15.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:15.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:15.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:15.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.784][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:15.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:15.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.788][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:15.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:15.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.792][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:15.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:15.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.795][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:15.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:15.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.799][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:15.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:15.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.803][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:15.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:15.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:15.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:15.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:15.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:15.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:15.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:15.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:15.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:15.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:15.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:15.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:15.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:15.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.829][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:15.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:15.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.833][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:15.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:15.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.837][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:15.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:15.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.840][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:15.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:15.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.844][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:15.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:15.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.848][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:15.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:15.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.851][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:15.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:15.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.855][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:15.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:15.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.859][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:15.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:15.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.863][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:15.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:15.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.866][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:15.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:15.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.892][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:15.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:15.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.896][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:15.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:15.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.900][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:15.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:15.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.903][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:15.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:15.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.907][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:15.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:15.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:15.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:15.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:15.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:15.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.925][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.929][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:15.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:15.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.932][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:15.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:15.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.936][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:15.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:15.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:15.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:15.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:15.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:15.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:15.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:15.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:15.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:15.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.954][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:15.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:15.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:15.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:15.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.961][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:15.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:15.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.964][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:15.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:15.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.968][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:15.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:15.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.971][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:15.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:15.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.975][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:15.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:15.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.978][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:15.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:15.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.982][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-04-12 06:35:15.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.986][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:15.996][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-04-12 06:35:15.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:15.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:15.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.053][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.057][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.064][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:16.103][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2022-04-12 06:35:16.114][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:16.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:16.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.117][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:16.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:16.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.121][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:16.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:16.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.124][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:16.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:16.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.150][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.181][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.185][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.189][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:16.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.211][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.212][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.213][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.213][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.236][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.237][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.238][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.239][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.251][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.255][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.258][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.262][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.263][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.264][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.265][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.266][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.289][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.290][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.291][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.292][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.302][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.306][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.316][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.320][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.321][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.321][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.322][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.323][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.344][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.345][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.346][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.347][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.348][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.358][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:16.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:16.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.362][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:16.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:16.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.366][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:16.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:16.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.370][ef$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:16.371][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:16.372][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.373][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.374][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:16.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:16.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.384][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:16.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:16.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.388][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:16.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:16.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.392][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:16.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:16.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.396][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:16.397][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:16.398][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.399][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.400][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:16.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:16.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.410][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.414][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.418][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.422][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.423][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.424][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.425][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.426][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.448][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.449][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.450][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.451][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.466][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.470][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.474][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.474][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.475][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.476][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.477][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.487][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.491][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.494][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.498][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.499][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.500][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.501][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.502][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.513][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.517][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.521][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.531][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.532][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.533][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.534][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.535][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.545][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:16.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:16.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.550][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:16.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:16.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.554][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:16.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:16.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.558][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:16.559][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:16.560][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.560][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.561][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:16.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:16.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:16.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:16.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:16.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:16.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:16.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:16.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.585][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:16.586][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:16.587][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.588][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.589][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:16.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:16.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.599][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.611][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.612][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.613][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.614][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.625][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.629][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.633][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.636][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.637][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.638][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.640][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.641][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.651][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.652][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.653][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.654][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.659][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.660][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.660][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.661][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.666][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.667][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.668][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.669][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.674][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.675][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.676][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.676][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.681][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.682][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:16.683][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.684][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.689][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.690][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:16.691][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.691][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.696][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.697][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:16.698][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.699][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.704][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.705][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:16.706][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.706][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.711][ef$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:16.712][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:16.713][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.714][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.719][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:16.720][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:16.721][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.722][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.728][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:16.729][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:16.730][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.731][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.736][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.737][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:16.738][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.743][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.748][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.749][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:16.750][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.751][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.761][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.763][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:16.764][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.765][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.771][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:16.772][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:16.774][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.774][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.780][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.781][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:16.782][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.783][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.789][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:16.790][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:16.791][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.792][ef$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:16.799][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:16.800][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2022-04-12 06:35:16.801][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:16.802][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:16.817][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2022-04-12 06:35:16.826][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-04-12 06:35:16.830][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:16.832][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-04-12 06:35:16.834][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2022-04-12 06:35:16.836][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:35:16.838][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2022-04-12 06:35:16.839][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:35:16.893][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-04-12 06:35:16.895][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-04-12 06:35:16.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:16.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:16.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:16.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:16.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:16.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:16.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:35:16.908][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.909][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.910][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.911][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:16.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:16.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.929][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.931][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.932][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.933][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.935][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:16.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.951][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.953][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.954][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.955][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.957][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:16.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.977][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.978][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:16.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:16.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:16.996][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:17.008][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:17.010][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.011][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:17.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:17.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.031][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:17.032][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:17.033][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.034][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.036][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:17.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:17.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.052][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:17.054][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:17.055][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.056][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.058][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:17.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:17.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.075][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:17.076][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:17.077][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.078][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.080][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:17.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:17.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.096][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:17.097][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:17.099][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.100][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.101][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:17.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:17.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.117][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:17.119][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:17.120][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.121][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.122][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:17.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:17.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.137][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:17.138][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:17.139][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.140][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:17.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:17.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.157][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.158][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.159][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.160][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.177][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:17.179][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:17.180][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.181][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:17.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:17.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.197][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.199][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.200][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.201][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.202][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.217][ef$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.218][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.219][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.220][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.222][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.237][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:17.239][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:17.240][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.241][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.243][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:17.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:17.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.260][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-04-12 06:35:17.262][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:17.263][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.264][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.266][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-04-12 06:35:17.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:17.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:17.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:17.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:17.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:17.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:17.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:17.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.303][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:17.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:17.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.307][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:17.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:17.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.311][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:17.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:17.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.315][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:17.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:17.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.320][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:17.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:17.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.324][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:17.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:17.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:17.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:17.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:17.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:17.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:17.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:17.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:17.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:17.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:17.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:17.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:17.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:17.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.352][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:17.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:17.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.356][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:17.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:17.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.360][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:17.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:17.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.364][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:17.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:17.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.368][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:17.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:17.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.372][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:17.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:17.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.376][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:17.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:17.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.380][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:17.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:17.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.384][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:17.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:17.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.388][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.392][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.396][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.400][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:17.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:17.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.404][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:17.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:17.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.408][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:17.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:17.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:17.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:17.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:17.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:17.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:17.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:17.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.424][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.436][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:17.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:17.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.440][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:17.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:17.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.444][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:17.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:17.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:17.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:17.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:17.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:17.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:17.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:17.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.473][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:17.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:17.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.477][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:17.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:17.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.481][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:17.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:17.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:17.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:17.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.489][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:17.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:17.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.493][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:17.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:17.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.497][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-04-12 06:35:17.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.516][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.519][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-04-12 06:35:17.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:17.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.535][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.540][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.549][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.553][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.568][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:17.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:17.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.573][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:17.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:17.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:17.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:17.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.581][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:17.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:17.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:17.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:17.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:17.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:17.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:17.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:17.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:17.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:17.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:17.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:17.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:17.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:17.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:17.622][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2022-04-12 06:35:17.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2022-04-12 06:35:17.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2022-04-12 06:35:17.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2022-04-12 06:35:17.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2022-04-12 06:35:17.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2022-04-12 06:35:17.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2022-04-12 06:35:17.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:17.642][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:17.643][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2022-04-12 06:35:17.644][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:17.645][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:17.648][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.649][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.650][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.651][ef$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:17.652][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2022-04-12 06:35:17.680][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:17.695][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2022-04-12 06:35:17.709][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-04-12 06:35:17.710][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-04-12 06:35:17.711][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-04-12 06:35:17.713][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:17.715][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:17.716][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:17.718][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:17.719][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:17.730][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:17.732][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:17.733][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:17.734][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-04-12 06:35:17.735][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-04-12 06:35:17.736][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-04-12 06:35:17.738][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.748][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:17.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:17.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:17.760][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-04-12 06:35:17.761][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-04-12 06:35:17.762][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2022-04-12 06:35:17.775][ef$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.777][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.778][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.779][ef$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:17.780][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2022-04-12 06:35:17.794][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.798][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.802][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:17.808][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[2022-04-12 06:35:17.883][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-04-12 06:35:17.885][private$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[2022-04-12 06:35:17.887][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2022-04-12 06:35:17.915][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:17.918][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:17.920][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:17.923][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:17.925][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:17.976][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:17.978][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:17.979][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:17.980][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-04-12 06:35:17.981][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-04-12 06:35:17.982][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-04-12 06:35:17.984][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.989][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.994][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:17.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:17.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:17.998][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:17.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:18.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:18.002][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-04-12 06:35:18.003][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-04-12 06:35:18.004][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2022-04-12 06:35:18.029][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:18.030][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2022-04-12 06:35:18.031][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:18.032][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:18.050][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:18.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:18.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.054][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:18.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:18.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:18.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:18.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:18.086][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-04-12 06:35:18.087][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-04-12 06:35:18.088][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-04-12 06:35:18.090][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:18.092][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:18.093][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:18.095][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:18.096][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:18.102][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:18.103][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:18.104][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:18.105][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-04-12 06:35:18.106][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-04-12 06:35:18.107][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-04-12 06:35:18.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:18.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:18.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.113][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:18.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:18.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.117][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:18.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:18.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.121][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:18.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:18.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:18.125][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-04-12 06:35:18.126][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2022-04-12 06:35:18.145][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:18.147][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2022-04-12 06:35:18.148][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:18.150][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:18.193][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:18.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:18.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.198][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:18.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:18.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.202][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:18.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:18.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.206][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:18.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:18.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.271][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:18.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:18.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.276][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:18.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:18.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.281][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:18.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:18.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:18.285][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:18.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:18.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:18.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:18.292][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:18.293][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2022-04-12 06:35:18.294][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:18.295][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:18.301][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:18.303][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2022-04-12 06:35:18.304][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:18.305][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:18.310][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:18.311][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2022-04-12 06:35:18.312][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:18.313][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:18.317][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2022-04-12 06:35:20.074][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2022-04-12 06:35:20.150][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:20.152][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2022-04-12 06:35:20.154][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:20.155][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:20.538][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.INFO [2022-04-12 06:35:20.585][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:20.586][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2022-04-12 06:35:20.587][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:20.588][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:20.601][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.606][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.610][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:20.660][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-04-12 06:35:20.661][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-04-12 06:35:20.662][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-04-12 06:35:20.664][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:20.665][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:20.667][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:20.668][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:20.669][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:20.688][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:20.689][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:20.690][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:20.691][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-04-12 06:35:20.692][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-04-12 06:35:20.693][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-04-12 06:35:20.695][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.703][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:20.711][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-04-12 06:35:20.712][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-04-12 06:35:20.724][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-04-12 06:35:20.725][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-04-12 06:35:20.726][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-04-12 06:35:20.728][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:20.729][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:20.731][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:20.732][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:20.733][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:20.747][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:20.748][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:20.749][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:20.750][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-04-12 06:35:20.751][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-04-12 06:35:20.752][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-04-12 06:35:20.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.758][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:20.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:20.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:20.769][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-04-12 06:35:20.770][private$doSearchForEntries] COUNT IDS = 1
biodb.TRACE[2022-04-12 06:35:20.785][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.790][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.793][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.797][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.801][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.WARN [2022-04-12 06:35:20.816][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-04-12 06:35:20.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:20.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:20.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:20.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:20.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:20.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:20.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:20.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:20.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:20.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:20.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:20.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:20.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.WARN [2022-04-12 06:35:20.863][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-04-12 06:35:20.867][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-04-12 06:35:20.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-04-12 06:35:20.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:20.878][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:20.880][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2022-04-12 06:35:20.881][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:20.882][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:20.885][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.890][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.894][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:20.898][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:20.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:20.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:20.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:20.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-04-12 06:35:20.998][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-04-12 06:35:21.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:21.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:21.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:21.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:21.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:21.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:21.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:21.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:21.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:21.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-04-12 06:35:21.172][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-04-12 06:35:21.201][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-04-12 06:35:21.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-04-12 06:35:21.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:21.206][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:21.207][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2022-04-12 06:35:21.208][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:21.209][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:21.213][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.218][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.222][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.226][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:21.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:21.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:21.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:21.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:21.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:21.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:21.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-04-12 06:35:21.318][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-04-12 06:35:21.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:21.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:21.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:21.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:21.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:21.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:21.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:21.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:21.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:21.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-04-12 06:35:21.430][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-04-12 06:35:21.434][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-04-12 06:35:21.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-04-12 06:35:21.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:21.440][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:21.441][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2022-04-12 06:35:21.442][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:21.442][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:21.446][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.450][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.454][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.457][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:21.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:21.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:21.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:21.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:21.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:21.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:21.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:21.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-04-12 06:35:21.534][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-04-12 06:35:21.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:21.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:21.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:21.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:21.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:21.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:21.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:21.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:21.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:21.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-04-12 06:35:21.644][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-04-12 06:35:21.648][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-04-12 06:35:21.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-04-12 06:35:21.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:21.653][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:21.654][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2022-04-12 06:35:21.655][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:21.656][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:21.658][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2022-04-12 06:35:21.704][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-04-12 06:35:21.706][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:21.708][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-04-12 06:35:21.725][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2022-04-12 06:35:21.727][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-04-12 06:35:21.728][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-04-12 06:35:21.730][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:35:21.731][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:21.765][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-04-12 06:35:21.766][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-04-12 06:35:21.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:21.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:21.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:21.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:21.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:21.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:21.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:35:21.777][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:21.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:21.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.782][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:21.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:21.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:21.811][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-04-12 06:35:21.812][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.INFO [2022-04-12 06:35:21.829][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:21.830][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2022-04-12 06:35:21.831][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:21.832][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:21.840][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2022-04-12 06:35:21.842][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2022-04-12 06:35:21.843][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-04-12 06:35:21.845][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:21.847][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-04-12 06:35:21.849][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2022-04-12 06:35:21.850][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-04-12 06:35:21.852][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-04-12 06:35:21.853][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:35:21.854][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:21.880][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-04-12 06:35:21.882][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-04-12 06:35:21.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:21.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:21.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:21.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:21.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:21.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:21.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:35:21.892][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:21.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:21.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.896][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:21.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:21.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:21.922][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-04-12 06:35:21.923][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.DEBUG[2022-04-12 06:35:21.924][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2022-04-12 06:35:21.941][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:21.942][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2022-04-12 06:35:21.944][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:21.945][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:21.963][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:21.964][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2022-04-12 06:35:21.965][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:21.966][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:21.969][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:21.970][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:21.971][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:21.973][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:21.973][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:21.984][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:21.986][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:21.986][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:21.987][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2022-04-12 06:35:21.993][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:21.994][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2022-04-12 06:35:21.995][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:21.996][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:21.999][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:22.000][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:22.001][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:22.003][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:22.004][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:22.015][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:22.016][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:22.017][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:22.018][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2022-04-12 06:35:22.025][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:22.026][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2022-04-12 06:35:22.027][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:22.028][biodb::testThat] 
biodb.ERROR[2022-04-12 06:35:22.042][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2022-04-12 06:35:22.060][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2022-04-12 06:35:22.069][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-04-12 06:35:22.071][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-04-12 06:35:22.079][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-04-12 06:35:22.080][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-04-12 06:35:22.081][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.083][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.085][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-04-12 06:35:22.090][biodb::testContext] 
biodb.INFO [2022-04-12 06:35:22.091][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:35:22.092][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2022-04-12 06:35:22.093][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:35:22.093][biodb::testContext] 
biodb.INFO [2022-04-12 06:35:22.107][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:35:22.109][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-04-12 06:35:22.113][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:22.114][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-04-12 06:35:22.116][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-04-12 06:35:22.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.119][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-04-12 06:35:22.120][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-04-12 06:35:22.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.124][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-04-12 06:35:22.125][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-04-12 06:35:22.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.129][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-04-12 06:35:22.130][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-04-12 06:35:22.137][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-04-12 06:35:22.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.141][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-04-12 06:35:22.142][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-04-12 06:35:22.143][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-04-12 06:35:22.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.146][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-04-12 06:35:22.147][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-04-12 06:35:22.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.150][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-04-12 06:35:22.151][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-04-12 06:35:22.152][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-04-12 06:35:22.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.155][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-04-12 06:35:22.156][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-04-12 06:35:22.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.159][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-04-12 06:35:22.160][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-04-12 06:35:22.161][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-04-12 06:35:22.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.165][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:35:22.166][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-04-12 06:35:22.167][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-04-12 06:35:22.167][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-04-12 06:35:22.168][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-04-12 06:35:22.169][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-04-12 06:35:22.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.173][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-04-12 06:35:22.174][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-04-12 06:35:22.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.177][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-04-12 06:35:22.178][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-04-12 06:35:22.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.181][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-04-12 06:35:22.182][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-04-12 06:35:22.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.186][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-04-12 06:35:22.186][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-04-12 06:35:22.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.190][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-04-12 06:35:22.191][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-04-12 06:35:22.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.194][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:35:22.195][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-04-12 06:35:22.200][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-04-12 06:35:22.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.203][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[2022-04-12 06:35:22.204][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-04-12 06:35:22.205][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-04-12 06:35:22.206][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-04-12 06:35:22.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.210][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-04-12 06:35:22.212][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.213][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-04-12 06:35:22.214][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.215][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:22.216][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.217][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.218][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.219][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.220][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:35:22.221][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:22.222][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.223][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-04-12 06:35:22.224][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:22.224][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.225][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.226][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:22.226][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:35:22.226][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:35:22.226][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:35:22.226][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:35:22.227][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:22.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:22.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:22.230][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:22.231][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:22.232][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:22.233][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.234][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.234][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:22.235][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:22.236][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.237][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.238][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-04-12 06:35:22.240][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.241][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:35:22.242][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.243][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:22.244][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.245][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.245][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.246][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.247][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:35:22.248][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:22.249][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.250][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-04-12 06:35:22.251][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:22.252][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.253][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.254][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:22.254][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:35:22.254][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:35:22.254][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:35:22.254][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:35:22.255][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:22.256][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:22.256][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:22.257][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:22.258][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:22.259][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:22.260][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.261][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.262][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:22.262][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:22.263][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.264][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.265][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-04-12 06:35:22.267][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.268][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-04-12 06:35:22.269][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.270][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:22.270][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.271][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.272][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.273][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.274][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:35:22.275][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:22.276][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.277][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-04-12 06:35:22.277][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:22.278][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.279][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.280][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.281][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:22.282][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:22.282][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:22.283][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:22.284][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:22.285][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:22.286][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.287][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.289][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:22.289][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:22.290][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.291][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.292][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-04-12 06:35:22.294][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.295][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:35:22.296][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.297][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:22.298][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.299][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.300][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.300][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.301][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:35:22.302][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:22.303][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.304][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-04-12 06:35:22.305][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:22.310][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.311][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.312][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.313][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:22.314][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:22.315][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:22.315][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:22.316][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:22.317][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:22.318][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.319][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.320][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:22.320][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:22.321][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.322][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.323][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:22.324][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.392][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-04-12 06:35:22.394][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-04-12 06:35:22.395][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-04-12 06:35:22.396][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-04-12 06:35:22.397][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-04-12 06:35:22.399][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-04-12 06:35:22.400][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-04-12 06:35:22.401][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-04-12 06:35:22.402][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-04-12 06:35:22.403][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-04-12 06:35:22.405][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-04-12 06:35:22.406][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-04-12 06:35:22.407][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-04-12 06:35:22.408][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-04-12 06:35:22.409][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-04-12 06:35:22.411][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:35:22.412][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-04-12 06:35:22.413][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-04-12 06:35:22.414][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-04-12 06:35:22.415][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-04-12 06:35:22.417][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-04-12 06:35:22.418][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-04-12 06:35:22.419][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-04-12 06:35:22.420][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-04-12 06:35:22.421][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-04-12 06:35:22.423][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-04-12 06:35:22.424][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-04-12 06:35:22.425][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-04-12 06:35:22.426][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-04-12 06:35:22.427][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-04-12 06:35:22.428][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-04-12 06:35:22.430][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-04-12 06:35:22.431][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-04-12 06:35:22.432][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-04-12 06:35:22.433][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-04-12 06:35:22.435][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-04-12 06:35:22.436][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-04-12 06:35:22.437][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-04-12 06:35:22.439][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-04-12 06:35:22.440][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-04-12 06:35:22.441][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-04-12 06:35:22.442][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-04-12 06:35:22.444][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-04-12 06:35:22.445][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-04-12 06:35:22.446][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-04-12 06:35:22.448][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-04-12 06:35:22.449][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-04-12 06:35:22.450][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-04-12 06:35:22.452][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-04-12 06:35:22.453][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-04-12 06:35:22.454][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-04-12 06:35:22.456][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-04-12 06:35:22.457][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-04-12 06:35:22.459][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-04-12 06:35:22.460][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-04-12 06:35:22.461][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-04-12 06:35:22.463][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-04-12 06:35:22.496][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-04-12 06:35:22.500][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-04-12 06:35:22.501][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-04-12 06:35:22.502][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-04-12 06:35:22.504][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-04-12 06:35:22.505][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-04-12 06:35:22.506][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-04-12 06:35:22.507][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-04-12 06:35:22.508][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-04-12 06:35:22.510][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-04-12 06:35:22.511][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-04-12 06:35:22.512][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-04-12 06:35:22.513][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-04-12 06:35:22.514][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-04-12 06:35:22.516][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-04-12 06:35:22.517][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-04-12 06:35:22.518][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-04-12 06:35:22.519][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-04-12 06:35:22.521][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-04-12 06:35:22.522][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-04-12 06:35:22.523][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-04-12 06:35:22.525][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-04-12 06:35:22.526][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-04-12 06:35:22.527][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-04-12 06:35:22.528][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-04-12 06:35:22.530][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-04-12 06:35:22.531][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-04-12 06:35:22.533][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:35:22.534][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:22.535][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.536][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.603][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[2022-04-12 06:35:22.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:22.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:22.631][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-04-12 06:35:22.632][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:22.634][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.635][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.635][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.636][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:22.637][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.638][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-04-12 06:35:22.639][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.640][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.641][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-04-12 06:35:22.641][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:22.642][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.644][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-04-12 06:35:22.645][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-04-12 06:35:22.646][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-04-12 06:35:22.647][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:22.648][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:22.648][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-04-12 06:35:22.649][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-04-12 06:35:22.649][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:22.650][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:22.651][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:22.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:22.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:22.653][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:22.654][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-04-12 06:35:22.654][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-04-12 06:35:22.655][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:22.660][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:22.661][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:22.662][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:22.663][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-04-12 06:35:22.665][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-04-12 06:35:22.666][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-04-12 06:35:22.668][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:35:22.670][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:22.671][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-04-12 06:35:22.672][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:22.674][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-04-12 06:35:22.675][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:22.675][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:22.677][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-04-12 06:35:22.677][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-04-12 06:35:22.678][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-04-12 06:35:22.678][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-04-12 06:35:22.679][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:22.680][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:22.681][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-04-12 06:35:22.682][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-04-12 06:35:22.682][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:22.684][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-04-12 06:35:22.685][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:22.685][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:22.687][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2022-04-12 06:35:22.688][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:22.689][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-04-12 06:35:22.690][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:22.691][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2022-04-12 06:35:22.691][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:22.692][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:22.696][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:22.697][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:22.699][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:22.700][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:22.701][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:22.711][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:22.712][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:22.713][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:22.714][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-04-12 06:35:22.716][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2022-04-12 06:35:22.718][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:22.719][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2022-04-12 06:35:22.720][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:22.721][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:22.723][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2022-04-12 06:35:22.724][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-04-12 06:35:22.725][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:22.727][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-04-12 06:35:22.729][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2022-04-12 06:35:22.730][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:35:22.731][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2022-04-12 06:35:22.732][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:35:22.754][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-04-12 06:35:22.755][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-04-12 06:35:22.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:22.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:35:22.766][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.767][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.768][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.769][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.790][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:22.792][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:22.793][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.794][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.797][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:22.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:22.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.812][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:22.813][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:22.814][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.815][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.816][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:22.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:22.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:22.833][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:22.834][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.835][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:22.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:22.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.851][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:22.852][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:22.853][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.869][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:22.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:22.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.887][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:22.889][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:22.890][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.891][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.892][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:22.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:22.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.906][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:22.907][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:22.908][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.909][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.911][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:22.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:22.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.925][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:22.926][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:22.927][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.928][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.930][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:22.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:22.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.944][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:22.945][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:22.946][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.947][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.949][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:22.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:22.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.963][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:22.964][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:22.965][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.966][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.967][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:22.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:22.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.982][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:22.984][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:22.985][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.986][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:22.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:22.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.001][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.002][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.004][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.005][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.019][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:23.020][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:23.021][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.022][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:23.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:23.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.036][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:23.037][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:23.038][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.039][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:23.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:23.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.053][ef$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:23.054][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:23.055][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.056][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.057][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:23.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:23.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.075][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:23.076][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:23.077][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.078][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.079][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:23.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:23.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.091][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-04-12 06:35:23.092][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:23.093][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.094][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.095][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-04-12 06:35:23.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:23.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.119][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:23.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:23.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.122][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:23.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:23.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.126][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:23.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:23.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.129][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:23.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:23.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.133][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:23.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:23.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.137][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:23.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:23.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:23.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:23.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:23.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:23.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:23.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:23.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:23.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:23.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:23.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:23.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:23.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:23.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.163][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:23.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:23.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.166][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:23.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:23.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.170][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:23.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:23.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.174][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:23.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:23.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.178][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:23.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:23.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.182][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:23.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:23.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.186][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:23.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:23.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.190][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:23.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:23.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.194][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:23.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:23.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.197][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:23.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:23.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.201][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:23.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:23.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.205][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:23.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:23.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.208][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:23.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:23.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:23.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:23.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.215][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:23.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:23.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:23.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:23.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:23.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:23.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:23.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:23.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.247][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:23.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:23.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.251][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:23.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:23.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.255][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:23.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:23.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:23.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:23.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:23.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:23.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:23.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:23.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.269][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:23.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:23.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.273][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:23.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:23.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.277][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:23.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:23.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.280][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:23.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:23.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.284][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:23.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:23.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.288][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:23.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:23.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.292][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:23.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:23.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.295][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:23.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:23.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.299][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:23.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:23.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.302][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-04-12 06:35:23.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.317][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-04-12 06:35:23.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:23.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:23.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:23.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:23.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:23.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:23.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:23.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.345][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:23.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:23.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:23.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:23.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.365][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:23.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:23.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.369][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:23.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:23.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.377][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:23.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:23.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:23.416][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2022-04-12 06:35:23.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:23.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:23.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:23.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:23.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:23.438][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-04-12 06:35:23.439][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-04-12 06:35:23.440][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-04-12 06:35:23.441][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-04-12 06:35:23.442][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.443][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.445][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-04-12 06:35:23.450][biodb::testContext] 
biodb.INFO [2022-04-12 06:35:23.450][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:35:23.451][biodb::testContext] Test context - Test search of entries
biodb.INFO [2022-04-12 06:35:23.452][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:35:23.453][biodb::testContext] 
biodb.INFO [2022-04-12 06:35:23.466][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:35:23.467][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-04-12 06:35:23.471][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:23.472][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-04-12 06:35:23.473][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-04-12 06:35:23.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.477][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-04-12 06:35:23.478][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-04-12 06:35:23.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.481][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-04-12 06:35:23.482][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-04-12 06:35:23.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.485][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-04-12 06:35:23.486][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-04-12 06:35:23.487][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-04-12 06:35:23.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.491][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-04-12 06:35:23.492][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-04-12 06:35:23.493][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-04-12 06:35:23.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.495][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[2022-04-12 06:35:23.496][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-04-12 06:35:23.497][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-04-12 06:35:23.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.500][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-04-12 06:35:23.501][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-04-12 06:35:23.502][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-04-12 06:35:23.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.506][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-04-12 06:35:23.507][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-04-12 06:35:23.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.510][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-04-12 06:35:23.511][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-04-12 06:35:23.512][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-04-12 06:35:23.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.516][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:35:23.517][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-04-12 06:35:23.518][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-04-12 06:35:23.519][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-04-12 06:35:23.520][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-04-12 06:35:23.521][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-04-12 06:35:23.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.524][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-04-12 06:35:23.525][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-04-12 06:35:23.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.529][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-04-12 06:35:23.530][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-04-12 06:35:23.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.533][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-04-12 06:35:23.534][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-04-12 06:35:23.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.538][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-04-12 06:35:23.539][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-04-12 06:35:23.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.543][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-04-12 06:35:23.544][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-04-12 06:35:23.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.548][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:35:23.549][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-04-12 06:35:23.554][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-04-12 06:35:23.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.558][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-04-12 06:35:23.559][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-04-12 06:35:23.560][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-04-12 06:35:23.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.564][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-04-12 06:35:23.567][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.568][self$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[2022-04-12 06:35:23.569][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.570][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:23.571][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.572][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.573][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.574][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.575][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:35:23.576][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:23.577][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.578][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-04-12 06:35:23.579][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:23.580][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.581][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.582][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:23.582][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:35:23.582][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:35:23.582][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:35:23.582][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:35:23.583][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:23.584][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:23.585][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:23.586][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:23.587][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:23.588][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:23.589][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.590][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.591][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:23.592][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:23.593][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.594][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.595][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-04-12 06:35:23.597][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.598][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:35:23.599][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.600][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:23.601][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.602][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.603][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.604][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.605][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:35:23.606][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:23.607][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.608][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-04-12 06:35:23.609][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:23.610][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.611][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.612][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:23.612][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:35:23.612][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:35:23.612][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:35:23.612][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:35:23.613][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:23.614][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:23.615][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:23.616][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:23.617][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:23.618][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:23.619][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.620][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.627][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:23.628][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:23.629][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.630][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.632][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-04-12 06:35:23.633][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.634][self$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[2022-04-12 06:35:23.635][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.636][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:23.637][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.638][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.639][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.640][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.641][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:35:23.642][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:23.643][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.644][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-04-12 06:35:23.645][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:23.646][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.647][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.648][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.649][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:23.650][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:23.651][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:23.652][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:23.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:23.654][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:23.654][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.655][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.656][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:23.657][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:23.658][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.659][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.661][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-04-12 06:35:23.663][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.664][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:35:23.665][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.666][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:23.667][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.668][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.669][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.670][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.671][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:35:23.672][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:23.673][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.674][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-04-12 06:35:23.675][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:23.676][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.677][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:23.678][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.680][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:23.680][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:23.681][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:23.682][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:23.683][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:23.684][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:23.685][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:23.686][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.687][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:23.688][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:23.689][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:23.690][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:23.692][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:23.693][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.711][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[2022-04-12 06:35:23.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.786][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-04-12 06:35:23.788][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-04-12 06:35:23.790][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-04-12 06:35:23.792][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-04-12 06:35:23.794][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-04-12 06:35:23.796][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-04-12 06:35:23.798][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-04-12 06:35:23.800][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-04-12 06:35:23.802][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-04-12 06:35:23.804][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-04-12 06:35:23.806][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-04-12 06:35:23.808][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-04-12 06:35:23.809][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-04-12 06:35:23.811][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-04-12 06:35:23.813][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-04-12 06:35:23.814][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:35:23.815][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-04-12 06:35:23.816][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-04-12 06:35:23.818][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-04-12 06:35:23.819][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-04-12 06:35:23.820][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-04-12 06:35:23.822][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-04-12 06:35:23.823][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-04-12 06:35:23.824][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-04-12 06:35:23.831][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-04-12 06:35:23.833][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-04-12 06:35:23.834][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-04-12 06:35:23.835][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-04-12 06:35:23.837][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-04-12 06:35:23.838][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-04-12 06:35:23.839][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-04-12 06:35:23.840][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-04-12 06:35:23.842][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-04-12 06:35:23.843][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-04-12 06:35:23.844][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-04-12 06:35:23.846][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-04-12 06:35:23.847][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-04-12 06:35:23.848][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-04-12 06:35:23.849][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-04-12 06:35:23.851][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-04-12 06:35:23.852][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-04-12 06:35:23.853][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-04-12 06:35:23.855][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-04-12 06:35:23.856][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-04-12 06:35:23.857][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-04-12 06:35:23.859][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-04-12 06:35:23.860][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-04-12 06:35:23.861][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-04-12 06:35:23.863][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-04-12 06:35:23.864][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-04-12 06:35:23.865][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-04-12 06:35:23.867][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-04-12 06:35:23.868][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-04-12 06:35:23.869][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-04-12 06:35:23.870][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-04-12 06:35:23.872][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-04-12 06:35:23.873][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-04-12 06:35:23.874][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-04-12 06:35:23.876][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-04-12 06:35:23.877][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-04-12 06:35:23.878][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-04-12 06:35:23.880][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-04-12 06:35:23.881][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-04-12 06:35:23.882][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-04-12 06:35:23.883][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-04-12 06:35:23.885][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-04-12 06:35:23.886][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-04-12 06:35:23.887][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-04-12 06:35:23.888][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-04-12 06:35:23.890][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-04-12 06:35:23.891][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-04-12 06:35:23.892][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-04-12 06:35:23.894][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-04-12 06:35:23.895][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-04-12 06:35:23.896][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-04-12 06:35:23.898][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-04-12 06:35:23.899][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-04-12 06:35:23.900][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-04-12 06:35:23.902][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-04-12 06:35:23.903][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-04-12 06:35:23.904][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-04-12 06:35:23.906][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-04-12 06:35:23.907][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-04-12 06:35:23.908][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-04-12 06:35:23.910][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:35:23.911][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:23.911][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.913][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.982][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[2022-04-12 06:35:23.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:23.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:23.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:23.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:23.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:23.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:23.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:23.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:24.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:24.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:24.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:24.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:24.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:24.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:24.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:24.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:24.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:24.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:24.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:24.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:24.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:24.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:24.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:24.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:24.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:24.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:24.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:24.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:24.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:24.016][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.DEBUG[2022-04-12 06:35:24.018][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-04-12 06:35:24.019][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:24.021][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:24.022][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-04-12 06:35:24.022][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:24.023][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:24.024][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:24.025][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-04-12 06:35:24.026][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:24.027][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:24.028][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-04-12 06:35:24.029][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:24.030][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:24.030][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-04-12 06:35:24.031][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-04-12 06:35:24.032][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-04-12 06:35:24.033][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:24.034][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:24.034][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-04-12 06:35:24.035][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-04-12 06:35:24.036][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:24.036][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:24.037][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:24.038][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:24.039][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:24.040][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:24.041][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-04-12 06:35:24.041][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-04-12 06:35:24.041][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:24.042][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:24.043][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:24.044][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:24.045][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-04-12 06:35:24.046][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-04-12 06:35:24.048][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-04-12 06:35:24.049][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:35:24.052][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:24.053][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-04-12 06:35:24.054][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:24.055][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-04-12 06:35:24.056][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:24.057][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:24.058][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-04-12 06:35:24.059][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-04-12 06:35:24.060][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-04-12 06:35:24.060][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-04-12 06:35:24.061][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:24.062][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:24.062][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-04-12 06:35:24.063][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-04-12 06:35:24.064][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-04-12 06:35:24.066][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-04-12 06:35:24.067][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:24.067][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:24.069][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2022-04-12 06:35:24.070][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-04-12 06:35:24.070][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-04-12 06:35:24.072][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:24.073][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2022-04-12 06:35:24.073][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:24.074][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:24.087][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-04-12 06:35:24.088][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2022-04-12 06:35:24.089][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2022-04-12 06:35:24.092][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:24.093][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:24.094][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:24.096][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:24.097][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:24.107][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:24.108][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:24.109][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:24.110][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-04-12 06:35:24.111][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-04-12 06:35:24.111][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2022-04-12 06:35:24.113][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2022-04-12 06:35:24.114][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-04-12 06:35:24.115][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:24.117][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-04-12 06:35:24.118][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2022-04-12 06:35:24.120][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:35:24.122][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2022-04-12 06:35:24.123][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:35:24.143][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-04-12 06:35:24.144][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-04-12 06:35:24.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:24.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:24.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:24.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:24.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:24.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:24.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:35:24.155][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.156][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.157][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.157][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.177][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.177][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.178][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.179][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.180][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.191][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.192][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.193][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.194][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.195][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.208][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.209][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.209][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.221][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.222][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.223][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.224][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.236][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.237][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.238][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.239][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.240][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.252][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.253][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.254][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.254][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.256][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.267][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.269][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.269][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.270][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.271][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.283][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.284][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.285][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.285][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.287][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.298][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:24.299][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:24.300][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.301][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.302][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:24.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:24.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.313][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:24.314][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:24.315][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.316][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:24.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:24.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.333][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.334][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.335][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.335][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.349][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.350][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.351][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.352][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.364][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:24.365][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:24.366][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.367][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:24.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:24.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.379][ef$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:24.380][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:24.380][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.381][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.382][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:24.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:24.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.393][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:24.394][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:24.395][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.396][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.397][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:24.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:24.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.409][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-04-12 06:35:24.410][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:24.410][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.411][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.412][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-04-12 06:35:24.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:24.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.434][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.438][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.441][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.445][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.448][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.451][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.475][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.479][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.482][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.491][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.495][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.498][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.502][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:24.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:24.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.506][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:24.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:24.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.509][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:24.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:24.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.513][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:24.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:24.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.516][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:24.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:24.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.520][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:24.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:24.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.524][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:24.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:24.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.528][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:24.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:24.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.532][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:24.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:24.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.535][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:24.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:24.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:24.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:24.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.543][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:24.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:24.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.550][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.557][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.561][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.564][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.579][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:24.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:24.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.582][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:24.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:24.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:24.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:24.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.590][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.593][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.597][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.601][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:24.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:24.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.604][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:24.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:24.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.608][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:24.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:24.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.612][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-04-12 06:35:24.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.627][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-04-12 06:35:24.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.642][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:24.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:24.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.647][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:24.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:24.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:24.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:24.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.654][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:24.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:24.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:24.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:24.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.677][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:24.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:24.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.681][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:24.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:24.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.689][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:24.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:24.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:24.725][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2022-04-12 06:35:24.726][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:24.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:24.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.730][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:24.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:24.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.733][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:24.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:24.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.737][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:24.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:24.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:24.740][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-04-12 06:35:24.741][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-04-12 06:35:24.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:24.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:24.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:24.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:24.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:24.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:24.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:24.749][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2022-04-12 06:35:24.750][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-04-12 06:35:24.751][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:24.753][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-04-12 06:35:24.755][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2022-04-12 06:35:24.756][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:35:24.757][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2022-04-12 06:35:24.758][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:35:24.779][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-04-12 06:35:24.780][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-04-12 06:35:24.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:24.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:24.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:24.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:24.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:24.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:24.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:35:24.790][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.791][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.792][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.793][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:24.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:24.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.806][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.807][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.808][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.809][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.810][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:24.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.823][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.824][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.825][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.826][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.827][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:24.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.844][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.846][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.847][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:24.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.861][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.862][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.863][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.864][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:24.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.878][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.879][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.880][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.881][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.882][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:24.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.895][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.896][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.897][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.898][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.899][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:24.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.913][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.914][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.915][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.916][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.917][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:24.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.930][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.931][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.932][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.933][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.934][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:24.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.947][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:24.948][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:24.949][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.949][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.951][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:24.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:24.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.963][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:24.964][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:24.965][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.966][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.967][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:24.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:24.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.980][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.981][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.982][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.982][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:24.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:24.996][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.997][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:24.998][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:24.998][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:25.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:25.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.018][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.019][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.020][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.021][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.035][ef$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.036][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.037][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.038][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.039][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.052][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:25.053][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:25.054][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.055][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.056][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:25.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:25.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.068][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-04-12 06:35:25.069][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:25.070][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.071][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.072][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-04-12 06:35:25.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:25.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:25.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:25.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:25.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:25.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:25.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:25.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.095][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:25.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:25.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.099][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:25.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:25.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.102][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:25.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:25.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.106][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:25.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:25.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.110][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:25.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:25.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.113][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-04-12 06:35:25.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-04-12 06:35:25.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:25.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:25.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:25.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:25.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:25.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:25.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:25.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:25.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:25.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:25.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:25.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-04-12 06:35:25.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.138][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:25.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:25.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.142][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:25.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:25.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.145][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:25.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:25.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.149][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:25.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:25.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.153][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:25.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:25.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.156][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:25.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-04-12 06:35:25.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.160][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:25.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:25.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.163][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:25.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:25.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.167][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:25.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-04-12 06:35:25.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.171][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.174][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.178][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.187][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:25.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:25.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:25.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:25.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.194][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:25.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:25.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:25.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:25.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:25.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:25.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-04-12 06:35:25.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-04-12 06:35:25.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.220][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:25.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:25.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.223][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:25.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:25.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.227][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:25.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:25.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:25.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:25.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:25.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:25.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:25.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:25.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.241][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.252][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:25.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:25.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.255][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:25.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:25.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.259][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:25.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:25.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.263][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:25.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:25.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.266][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:25.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:25.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.270][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-04-12 06:35:25.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-04-12 06:35:25.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.274][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-04-12 06:35:25.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.277][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.288][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-04-12 06:35:25.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-04-12 06:35:25.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.312][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.317][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.342][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:25.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:25.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.348][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:25.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:25.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:25.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:25.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.359][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:25.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:25.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:25.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:25.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:25.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:25.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:25.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:25.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:25.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:25.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:25.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:25.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:25.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:25.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:25.421][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2022-04-12 06:35:25.422][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.428][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.434][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.440][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:25.445][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-04-12 06:35:25.447][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2022-04-12 06:35:25.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:25.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:25.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:25.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:25.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:25.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:25.458][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[2022-04-12 06:35:25.459][function(conn)] Found ids when searching for words "[1]: "and"": [2]: "HMDB0000001, HMDB0000002".
biodb.DEBUG[2022-04-12 06:35:25.475][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-04-12 06:35:25.477][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2022-04-12 06:35:25.478][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2022-04-12 06:35:25.479][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:25.481][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:25.482][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:25.484][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:25.485][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:25.497][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:25.498][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:25.499][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:25.500][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-04-12 06:35:25.501][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-04-12 06:35:25.502][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-04-12 06:35:25.504][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.508][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.512][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.515][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.519][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.523][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.526][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:25.530][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-04-12 06:35:25.531][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-04-12 06:35:25.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:25.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:25.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:25.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:25.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:25.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:25.537][FUN] Functions in observer BiodbConfig: [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[2022-04-12 06:35:25.538][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.542][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.546][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.549][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.553][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.557][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.561][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:25.564][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2022-04-12 06:35:25.565][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-04-12 06:35:25.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:25.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:25.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:25.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:25.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:25.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:25.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:25.579][function(conn)] Found ids when searching for words "[2]: "histidine, cerebrovascular"": [1]: "HMDB0000001".
biodb.DEBUG[2022-04-12 06:35:25.612][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-04-12 06:35:25.613][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2022-04-12 06:35:25.614][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2022-04-12 06:35:25.616][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:25.617][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:25.619][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-04-12 06:35:25.620][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-04-12 06:35:25.621][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-04-12 06:35:25.633][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-04-12 06:35:25.634][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-04-12 06:35:25.635][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-04-12 06:35:25.636][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-04-12 06:35:25.637][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-04-12 06:35:25.638][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-04-12 06:35:25.640][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.644][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.649][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.653][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.657][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.661][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.664][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:25.669][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2022-04-12 06:35:25.670][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2022-04-12 06:35:25.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:25.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:25.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:25.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:25.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:25.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:25.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:35:25.678][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.683][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.687][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.691][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.695][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.699][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.703][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-04-12 06:35:25.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-04-12 06:35:25.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:25.707][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-04-12 06:35:25.708][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-04-12 06:35:25.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:25.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:25.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:25.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:25.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:25.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:25.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:25.717][function(conn)] Found ids when searching for words "[2]: "monoalkylamines, shiitakes"": [1]: "HMDB0000002".
biodb.INFO [2022-04-12 06:35:25.721][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-04-12 06:35:25.722][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-04-12 06:35:25.723][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-04-12 06:35:25.724][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-04-12 06:35:25.725][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:25.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:25.727][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:25.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:25.728][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:25.729][FUN] Functions in observer 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 230 ]
> 
> proc.time()
   user  system elapsed 
 11.000   0.375  13.287

Example timings

biodbHmdb.Rcheck/biodbHmdb-Ex.timings

nameusersystemelapsed
HmdbMetabolitesConn1.7170.1601.879
HmdbMetabolitesEntry0.2520.0120.264