Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-21 13:04:54 -0500 (Fri, 21 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4079
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4140
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? here 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: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 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 -0500 (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: 2022-01-20 06:30:52 -0500 (Thu, 20 Jan 2022)
EndedAt: 2022-01-20 06:31:43 -0500 (Thu, 20 Jan 2022)
EllapsedTime: 51.0 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 4.1.2 (2021-11-01)
* 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 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 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 [2022-01-20 06:31:31.375][biodb::testContext] 
biodb.INFO [2022-01-20 06:31:31.377][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:31:31.379][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2022-01-20 06:31:31.380][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:31:31.380][biodb::testContext] 
biodb.INFO [2022-01-20 06:31:31.382][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:31.383][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2022-01-20 06:31:31.384][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:31.385][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:31.464][biodb::testContext] 
biodb.INFO [2022-01-20 06:31:31.466][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:31:31.467][biodb::testContext] Test context - Generic tests
biodb.INFO [2022-01-20 06:31:31.468][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:31:31.469][biodb::testContext] 
biodb.INFO [2022-01-20 06:31:31.488][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:31:31.490][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 06:31:31.498][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:31.500][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 06:31:31.501][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 06:31:31.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.505][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 06:31:31.524][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 06:31:31.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.528][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[2022-01-20 06:31:31.529][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 06:31:31.530][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 06:31:31.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.534][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 06:31:31.535][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 06:31:31.536][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 06:31:31.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.539][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 06:31:31.540][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 06:31:31.541][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 06:31:31.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.545][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 06:31:31.546][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 06:31:31.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.550][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 06:31:31.551][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 06:31:31.552][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 06:31:31.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.555][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 06:31:31.556][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 06:31:31.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.560][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 06:31:31.561][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 06:31:31.562][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 06:31:31.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.576][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:31:31.577][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 06:31:31.578][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 06:31:31.579][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 06:31:31.580][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 06:31:31.581][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 06:31:31.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.584][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 06:31:31.585][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 06:31:31.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.588][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 06:31:31.589][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 06:31:31.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.592][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[2022-01-20 06:31:31.593][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 06:31:31.594][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 06:31:31.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.597][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 06:31:31.598][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 06:31:31.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.601][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 06:31:31.602][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 06:31:31.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.606][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:31:31.607][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 06:31:31.613][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-20 06:31:31.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.617][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 06:31:31.618][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 06:31:31.619][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 06:31:31.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.626][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 06:31:31.660][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.675][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-20 06:31:31.677][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.678][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:31.679][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.680][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.681][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.682][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.683][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:31:31.683][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:31.684][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.685][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 06:31:31.686][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:31.687][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.688][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.689][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:31.689][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:31:31.689][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:31:31.689][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:31:31.689][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:31:31.690][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:31.691][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:31.692][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:31.693][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:31.694][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:31.694][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:31.695][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.696][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.697][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:31.698][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:31.699][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.700][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.701][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 06:31:31.703][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.704][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:31:31.705][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.705][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:31.706][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.707][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.708][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.709][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.710][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:31:31.711][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:31.712][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.713][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 06:31:31.714][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:31.714][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.715][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.716][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:31.716][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:31:31.716][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:31:31.716][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:31:31.716][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:31:31.717][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:31.718][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:31.719][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:31.720][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:31.721][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:31.721][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:31.722][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.723][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.724][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:31.725][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:31.726][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.727][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.728][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 06:31:31.729][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.730][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-20 06:31:31.731][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.732][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:31.733][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.734][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.735][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.735][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.736][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:31:31.737][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:31.738][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.739][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 06:31:31.740][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:31.741][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.742][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.743][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.743][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:31.744][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:31.745][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:31.746][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:31.747][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:31.748][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:31.748][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.749][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.750][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:31.751][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:31.752][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.753][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.754][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 06:31:31.755][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.756][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:31:31.757][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.758][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:31.759][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.760][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.761][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.761][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.762][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:31:31.763][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:31.764][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.765][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 06:31:31.766][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:31.767][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.768][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:31.768][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.769][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:31.770][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:31.771][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:31.772][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:31.773][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:31.773][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:31.774][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:31.775][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.776][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:31.777][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:31.778][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:31.778][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:31.782][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:31.783][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.859][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 06:31:31.864][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 06:31:31.866][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 06:31:31.867][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 06:31:31.868][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 06:31:31.870][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 06:31:31.871][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 06:31:31.872][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 06:31:31.873][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 06:31:31.875][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 06:31:31.876][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 06:31:31.877][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 06:31:31.879][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 06:31:31.880][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 06:31:31.881][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 06:31:31.883][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:31:31.884][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 06:31:31.885][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 06:31:31.886][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 06:31:31.888][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 06:31:31.889][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 06:31:31.890][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 06:31:31.892][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 06:31:31.893][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 06:31:31.894][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 06:31:31.895][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 06:31:31.897][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 06:31:31.898][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 06:31:31.899][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 06:31:31.900][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 06:31:31.902][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 06:31:31.903][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 06:31:31.904][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 06:31:31.905][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 06:31:31.907][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 06:31:31.908][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 06:31:31.909][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 06:31:31.910][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 06:31:31.912][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 06:31:31.913][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 06:31:31.914][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 06:31:31.915][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 06:31:31.917][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 06:31:31.918][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 06:31:31.919][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 06:31:31.921][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 06:31:31.922][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 06:31:31.923][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 06:31:31.924][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 06:31:31.926][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 06:31:31.927][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 06:31:31.928][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 06:31:31.929][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 06:31:31.931][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 06:31:31.932][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 06:31:31.933][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 06:31:31.934][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 06:31:31.936][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 06:31:31.937][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 06:31:31.938][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 06:31:31.939][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 06:31:31.941][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 06:31:31.942][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 06:31:31.943][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 06:31:31.944][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 06:31:31.946][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 06:31:31.947][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 06:31:31.948][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 06:31:31.949][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 06:31:31.951][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 06:31:31.952][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 06:31:31.953][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 06:31:31.954][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 06:31:31.956][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 06:31:31.957][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 06:31:31.958][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 06:31:31.959][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 06:31:31.960][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 06:31:31.962][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 06:31:31.963][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 06:31:31.964][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 06:31:31.965][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 06:31:31.967][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 06:31:31.972][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 06:31:31.974][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:31:31.977][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:31.978][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.979][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:31.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:31.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:31.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:31.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:31.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:31.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:31.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:31.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:31.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:31.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:31.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.000][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[2022-01-20 06:31:32.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.005][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[2022-01-20 06:31:32.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:32.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:32.085][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-01-20 06:31:32.094][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:32.096][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:32.097][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-20 06:31:32.097][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:32.098][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:32.099][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:32.100][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-01-20 06:31:32.101][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:32.102][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:32.103][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-01-20 06:31:32.104][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:32.104][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:32.105][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-01-20 06:31:32.106][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-01-20 06:31:32.107][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-01-20 06:31:32.108][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:32.109][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:32.109][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-01-20 06:31:32.110][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-01-20 06:31:32.111][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:32.112][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:32.112][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:32.113][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:32.114][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:32.115][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:32.116][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-20 06:31:32.116][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-01-20 06:31:32.117][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:32.117][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:32.118][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:32.119][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:32.125][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 06:31:32.126][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 06:31:32.128][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 06:31:32.129][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:31:32.152][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:32.153][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-01-20 06:31:32.158][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:32.162][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-20 06:31:32.166][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:32.167][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:32.168][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-01-20 06:31:32.169][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-01-20 06:31:32.170][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-20 06:31:32.170][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-01-20 06:31:32.171][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:32.172][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:32.172][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-01-20 06:31:32.173][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-01-20 06:31:32.174][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:32.190][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-20 06:31:32.191][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:32.192][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:32.194][private$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[2022-01-20 06:31:32.195][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:32.195][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-01-20 06:31:32.214][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:32.215][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2022-01-20 06:31:32.216][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:32.217][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:32.221][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[2022-01-20 06:31:32.227][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-20 06:31:32.228][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-20 06:31:32.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:32.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:32.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:32.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:32.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:32.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:32.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:31:32.256][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.257][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.258][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.259][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.291][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:32.292][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:32.293][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.294][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.319][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:32.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:32.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.327][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:32.328][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:32.329][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.330][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.331][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:32.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:32.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.339][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:32.340][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:32.341][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.341][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:32.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:32.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.350][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:32.351][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:32.352][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.353][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:32.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:32.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.361][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:32.362][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:32.363][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.364][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.365][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:32.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:32.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.372][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:32.373][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:32.374][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.375][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.376][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:32.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:32.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.384][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:32.385][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:32.386][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.387][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.388][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:32.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:32.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.395][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:32.396][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:32.397][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.398][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.399][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:32.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:32.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.406][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:32.407][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:32.408][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.409][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.410][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:32.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:32.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.418][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:32.419][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:32.419][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.420][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:32.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:32.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.429][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.430][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.431][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.432][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.441][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:32.442][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:32.443][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.443][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:32.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:32.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.465][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:32.468][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:32.469][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.470][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:32.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:32.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.481][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:32.482][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:32.483][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.484][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.486][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:32.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:32.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.494][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:32.495][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:32.496][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.497][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.499][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:32.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:32.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.543][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-01-20 06:31:32.544][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:32.545][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.546][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.548][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-01-20 06:31:32.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:32.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.610][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:32.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:32.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.614][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:32.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:32.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.618][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:32.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:32.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.622][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:32.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:32.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.626][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:32.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:32.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.629][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:32.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:32.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:32.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:32.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:32.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:32.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:32.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:32.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:32.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:32.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:32.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:32.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:32.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:32.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.657][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:32.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:32.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.661][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:32.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:32.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.665][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:32.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:32.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:32.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:32.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.673][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:32.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:32.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.677][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:32.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:32.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.681][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:32.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:32.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.684][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:32.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:32.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.688][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:32.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:32.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.692][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:32.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:32.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.696][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:32.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:32.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.700][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:32.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:32.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.704][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:32.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:32.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.708][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:32.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:32.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.712][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:32.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:32.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:32.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:32.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.719][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:32.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:32.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:32.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:32.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.737][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:32.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:32.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.741][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:32.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:32.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.745][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:32.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:32.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:32.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:32.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:32.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:32.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:32.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:32.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:32.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:32.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:32.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:32.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.771][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:32.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:32.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.774][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:32.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:32.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.778][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:32.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:32.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.781][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:32.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:32.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.785][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:32.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:32.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:32.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:32.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.792][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:32.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:32.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.796][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-20 06:31:32.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.807][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.810][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-20 06:31:32.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:32.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.835][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:32.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:32.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:32.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:32.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.843][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:32.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:32.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.846][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:32.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:32.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.850][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:32.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:32.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.857][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.861][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.868][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:32.897][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2022-01-20 06:31:32.904][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:32.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:32.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.908][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:32.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:32.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.912][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:32.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:32.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.916][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:32.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:32.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.945][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:32.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.981][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.984][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.988][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:32.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:32.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:32.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:32.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:33.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:33.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.009][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:33.010][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.011][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.012][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:33.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.031][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.032][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.033][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.034][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.043][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.046][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.050][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.053][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.054][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.055][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.056][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.057][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.076][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.077][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.078][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.079][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.088][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.092][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.095][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.099][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.100][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.101][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.102][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.103][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.114][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.121][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.122][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.123][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.124][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.133][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.137][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.140][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.144][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.145][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.145][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.146][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.147][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.155][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.159][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.191][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.194][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.195][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.196][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.197][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.198][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.205][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.209][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.213][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.216][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.217][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.218][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.219][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.219][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.238][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.239][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.240][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.241][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.250][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.254][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.257][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.261][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.262][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.262][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.263][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.264][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.272][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.276][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.279][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.283][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.284][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.284][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.285][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.286][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.295][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.298][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.302][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.306][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.307][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.308][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.309][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.310][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.318][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.322][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.325][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.329][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.330][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.331][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.331][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.332][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.351][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.352][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.353][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.354][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.355][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.370][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.374][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.375][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.376][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.377][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.378][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.386][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.394][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.397][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.401][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.402][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.402][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.403][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.404][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.412][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:33.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.414][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.414][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.417][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.418][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.419][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.420][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.422][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.423][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.424][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.425][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.428][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.429][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.429][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.430][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.433][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.434][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.435][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.436][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.439][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.440][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.440][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.441][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.444][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.445][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.446][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.447][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.449][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.450][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.451][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.452][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.455][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.456][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.457][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.457][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.460][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.461][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.462][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.463][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.466][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.467][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.468][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.468][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.471][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.472][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.473][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.474][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.476][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.477][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.478][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.479][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.482][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.483][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.484][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.484][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.487][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.488][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.489][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.490][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.492][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.493][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.494][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.495][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.498][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.499][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.500][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.501][ef$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:33.505][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:33.506][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2022-01-20 06:31:33.506][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:33.507][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:33.520][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2022-01-20 06:31:33.528][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-20 06:31:33.532][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:33.533][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-20 06:31:33.535][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2022-01-20 06:31:33.536][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:31:33.539][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2022-01-20 06:31:33.540][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:31:33.571][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-20 06:31:33.572][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-20 06:31:33.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:33.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:33.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:33.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:33.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:33.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:33.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:31:33.583][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:33.584][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.585][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.592][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:33.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.601][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.602][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.603][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.604][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.605][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.612][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.614][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.614][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.615][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.617][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.624][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.625][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.626][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.627][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.636][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.637][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.638][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.639][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.648][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.649][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.650][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.651][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.652][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.660][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.661][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.662][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.662][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.664][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.671][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.672][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.673][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.674][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.675][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.683][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.684][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.685][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.686][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.687][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.695][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.696][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.697][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.697][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.699][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.706][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.707][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.708][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.709][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.718][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.719][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.720][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.721][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.730][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.731][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.732][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.733][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.741][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.743][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.743][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.744][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.753][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.754][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.755][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.756][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.757][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.765][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.766][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.767][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.768][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.769][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.777][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-01-20 06:31:33.778][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.779][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.780][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.781][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-01-20 06:31:33.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:33.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:33.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:33.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:33.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.805][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.809][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.813][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:33.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.817][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.820][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.824][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:33.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:33.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:33.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.850][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.854][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.858][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:33.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.862][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.865][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.869][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:33.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.873][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.876][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.880][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:33.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.884][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.887][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.891][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:33.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:33.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.895][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.898][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:33.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:33.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:33.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:33.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.928][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.932][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.936][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:33.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:33.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.951][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.954][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.958][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:33.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:33.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.962][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.966][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.969][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:33.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.973][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.977][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.981][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:33.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:33.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.985][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-20 06:31:33.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:33.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:33.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:33.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:34.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:34.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.004][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-20 06:31:34.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:34.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.013][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.017][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.029][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.038][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:34.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:34.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.043][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:34.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:34.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:34.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:34.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.051][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:34.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:34.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:34.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:34.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:34.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:34.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:34.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:34.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:34.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:34.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:34.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:34.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:34.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:34.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:34.084][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2022-01-20 06:31:34.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2022-01-20 06:31:34.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2022-01-20 06:31:34.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2022-01-20 06:31:34.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2022-01-20 06:31:34.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2022-01-20 06:31:34.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2022-01-20 06:31:34.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:34.101][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:34.102][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2022-01-20 06:31:34.103][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:34.104][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:34.107][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.108][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.109][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.109][ef$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:34.111][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2022-01-20 06:31:34.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.136][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:34.145][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2022-01-20 06:31:34.150][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-01-20 06:31:34.151][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-20 06:31:34.152][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-20 06:31:34.153][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:34.154][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:34.156][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:34.157][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:34.158][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:34.163][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:34.164][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:34.165][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:34.166][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-20 06:31:34.167][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-20 06:31:34.168][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-20 06:31:34.169][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.176][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.180][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:34.184][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-20 06:31:34.185][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-20 06:31:34.185][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2022-01-20 06:31:34.192][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:34.193][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:34.194][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.195][ef$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:34.196][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2022-01-20 06:31:34.202][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:34.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:34.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.211][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:34.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:34.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.214][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:34.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:34.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:34.220][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[2022-01-20 06:31:34.265][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-01-20 06:31:34.266][private$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[2022-01-20 06:31:34.267][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2022-01-20 06:31:34.281][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:34.283][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:34.284][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:34.286][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:34.287][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:34.305][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:34.307][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:34.308][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:34.309][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-20 06:31:34.310][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-20 06:31:34.310][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-20 06:31:34.312][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:34.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:34.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.316][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:34.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:34.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.319][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:34.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:34.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.323][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:34.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:34.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:34.326][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-20 06:31:34.327][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-20 06:31:34.328][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2022-01-20 06:31:34.335][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:34.336][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2022-01-20 06:31:34.337][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:34.338][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:34.344][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.351][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:34.361][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-01-20 06:31:34.362][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-20 06:31:34.363][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-20 06:31:34.364][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:34.365][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:34.367][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:34.368][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:34.369][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:34.372][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:34.372][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:34.373][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:34.374][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-20 06:31:34.375][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-20 06:31:34.376][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-20 06:31:34.377][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.381][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.390][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.393][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:34.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:34.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:34.396][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-20 06:31:34.397][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2022-01-20 06:31:34.405][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:34.406][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2022-01-20 06:31:34.406][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:34.407][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:34.431][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:34.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:34.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.435][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:34.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:34.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.438][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:34.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:34.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.442][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:34.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:34.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.486][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:34.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:34.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.490][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:34.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:34.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.493][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:34.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:34.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:34.497][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:34.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:34.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:34.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:34.504][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:34.505][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2022-01-20 06:31:34.506][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:34.506][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:34.511][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:34.512][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2022-01-20 06:31:34.513][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:34.514][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:34.518][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:34.519][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2022-01-20 06:31:34.520][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:34.520][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:34.523][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2022-01-20 06:31:35.221][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2022-01-20 06:31:35.261][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:35.262][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2022-01-20 06:31:35.263][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:35.264][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:35.560][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.INFO [2022-01-20 06:31:35.599][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:35.601][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2022-01-20 06:31:35.603][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:35.605][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:35.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.634][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:35.679][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-01-20 06:31:35.681][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-20 06:31:35.682][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-20 06:31:35.684][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:35.686][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:35.687][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:35.689][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:35.690][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:35.702][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:35.704][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:35.705][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:35.706][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-20 06:31:35.707][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-20 06:31:35.708][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-20 06:31:35.710][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.715][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:35.727][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-20 06:31:35.728][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-20 06:31:35.748][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2022-01-20 06:31:35.750][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-20 06:31:35.751][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2022-01-20 06:31:35.753][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:35.754][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:35.756][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:35.757][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:35.758][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:35.762][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:35.763][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:35.764][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:35.765][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-20 06:31:35.766][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-20 06:31:35.766][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-20 06:31:35.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.777][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.781][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:35.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:35.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:35.785][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-20 06:31:35.786][private$doSearchForEntries] COUNT IDS = 1
biodb.TRACE[2022-01-20 06:31:35.795][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.799][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.803][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.807][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.811][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.WARN [2022-01-20 06:31:35.821][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-01-20 06:31:35.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 06:31:35.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 06:31:35.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.WARN [2022-01-20 06:31:35.860][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-01-20 06:31:35.864][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-20 06:31:35.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-20 06:31:35.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:35.873][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:35.874][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2022-01-20 06:31:35.875][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:35.876][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:35.880][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.884][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.888][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.893][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:35.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:35.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:35.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:35.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:35.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:35.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:35.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:35.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-01-20 06:31:35.940][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-01-20 06:31:35.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 06:31:35.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 06:31:35.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:35.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:35.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:35.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:36.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:36.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:36.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:36.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:36.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:36.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-01-20 06:31:36.069][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-01-20 06:31:36.100][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-20 06:31:36.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-20 06:31:36.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:36.106][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:36.107][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2022-01-20 06:31:36.108][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:36.109][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:36.112][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.116][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.120][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.132][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:36.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:36.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:36.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:36.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:36.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:36.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.147][FUN] Functions in observer BiodbConfig: [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 [2022-01-20 06:31:36.176][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-01-20 06:31:36.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 06:31:36.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 06:31:36.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:36.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:36.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:36.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:36.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:36.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:36.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-01-20 06:31:36.248][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-01-20 06:31:36.254][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-20 06:31:36.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-20 06:31:36.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:36.260][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:36.261][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2022-01-20 06:31:36.262][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:36.263][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:36.267][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.272][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.276][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.280][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:36.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:36.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:36.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:36.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:36.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:36.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:36.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.296][FUN] Functions in observer BiodbConfig: [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 [2022-01-20 06:31:36.326][self$searchForEntries] This database is not searchable by field "average.mass".
biodb.TRACE[2022-01-20 06:31:36.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 06:31:36.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 06:31:36.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:36.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:36.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:36.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:36.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:36.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:36.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:36.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2022-01-20 06:31:36.396][self$searchForEntries] This database is not searchable by field "monoisotopic.mass".
biodb.TRACE[2022-01-20 06:31:36.400][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-20 06:31:36.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-20 06:31:36.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:36.406][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:36.407][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2022-01-20 06:31:36.408][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:36.409][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:36.412][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2022-01-20 06:31:36.471][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-20 06:31:36.474][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:36.476][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-20 06:31:36.495][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2022-01-20 06:31:36.496][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-20 06:31:36.497][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 06:31:36.499][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:31:36.500][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:36.513][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-20 06:31:36.514][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-20 06:31:36.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:36.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:36.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:36.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:36.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:36.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:31:36.540][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:36.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:36.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.544][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:36.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:36.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:36.572][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-01-20 06:31:36.573][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.INFO [2022-01-20 06:31:36.587][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:36.588][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2022-01-20 06:31:36.589][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:36.590][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:36.596][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2022-01-20 06:31:36.598][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2022-01-20 06:31:36.599][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-20 06:31:36.600][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:36.602][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-20 06:31:36.604][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2022-01-20 06:31:36.605][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-20 06:31:36.606][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 06:31:36.607][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:31:36.609][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:36.619][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-20 06:31:36.620][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-20 06:31:36.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:36.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:36.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:36.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:36.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:36.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:31:36.630][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:36.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:36.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.634][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:36.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:36.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:36.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:36.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:36.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:36.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:36.660][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-01-20 06:31:36.661][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.DEBUG[2022-01-20 06:31:36.662][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2022-01-20 06:31:36.669][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:36.671][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2022-01-20 06:31:36.671][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:36.672][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:36.689][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:36.690][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2022-01-20 06:31:36.691][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:36.692][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:36.694][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:36.696][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:36.697][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:36.698][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:36.699][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:36.704][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:36.705][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:36.706][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:36.707][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2022-01-20 06:31:36.711][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:36.712][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2022-01-20 06:31:36.718][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:36.719][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:36.721][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:36.723][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:36.724][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:36.725][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:36.726][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:36.731][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:36.732][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:36.733][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:36.734][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2022-01-20 06:31:36.739][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:36.740][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2022-01-20 06:31:36.741][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:36.741][biodb::testThat] 
biodb.ERROR[2022-01-20 06:31:36.752][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2022-01-20 06:31:36.761][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2022-01-20 06:31:36.767][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-20 06:31:36.768][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-01-20 06:31:36.776][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-01-20 06:31:36.777][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 06:31:36.778][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:36.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:36.780][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:36.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:36.781][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-20 06:31:36.787][biodb::testContext] 
biodb.INFO [2022-01-20 06:31:36.788][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:31:36.789][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2022-01-20 06:31:36.790][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:31:36.791][biodb::testContext] 
biodb.INFO [2022-01-20 06:31:36.799][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:31:36.800][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 06:31:36.804][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:36.805][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 06:31:36.806][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 06:31:36.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.809][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 06:31:36.810][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 06:31:36.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.814][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 06:31:36.815][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 06:31:36.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.818][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 06:31:36.819][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 06:31:36.820][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 06:31:36.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.823][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 06:31:36.824][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 06:31:36.825][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 06:31:36.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.829][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 06:31:36.830][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 06:31:36.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.833][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 06:31:36.834][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 06:31:36.835][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 06:31:36.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.839][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 06:31:36.840][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 06:31:36.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.843][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 06:31:36.844][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 06:31:36.845][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 06:31:36.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.848][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:31:36.849][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 06:31:36.850][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 06:31:36.851][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 06:31:36.852][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 06:31:36.853][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 06:31:36.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.857][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 06:31:36.858][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 06:31:36.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.861][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 06:31:36.862][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 06:31:36.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.866][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 06:31:36.867][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 06:31:36.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.870][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 06:31:36.871][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 06:31:36.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.874][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 06:31:36.875][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 06:31:36.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.879][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:31:36.880][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 06:31:36.885][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-20 06:31:36.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.889][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 06:31:36.890][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 06:31:36.891][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 06:31:36.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:36.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:36.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:36.902][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 06:31:36.904][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:36.905][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-20 06:31:36.906][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.907][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:36.908][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.909][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.910][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:36.911][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.912][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:31:36.913][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:36.914][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.915][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 06:31:36.916][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:36.917][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:36.918][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.919][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:36.919][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:31:36.919][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:31:36.919][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:31:36.919][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:31:36.920][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:36.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:36.921][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:36.922][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:36.923][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:36.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:36.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.926][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:36.927][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:36.928][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:36.928][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:36.929][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:36.931][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 06:31:36.932][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:36.933][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:31:36.934][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.935][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:36.936][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.937][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.938][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:36.939][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.940][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:31:36.941][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:36.942][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.943][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 06:31:36.944][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:36.945][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:36.946][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.947][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:36.947][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:31:36.947][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:31:36.947][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:31:36.947][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:31:36.948][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:36.949][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:36.950][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:36.951][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:36.951][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:36.952][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:36.953][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.954][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:36.955][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:36.956][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:36.957][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:36.958][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:36.959][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 06:31:36.961][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.962][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-20 06:31:36.963][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.964][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:36.965][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.966][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.967][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:36.968][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.969][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:31:36.970][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:36.971][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:36.972][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 06:31:36.973][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:36.974][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:36.975][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.976][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:36.976][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:36.977][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:36.978][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:36.979][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:36.980][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:36.981][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:36.982][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.983][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:36.984][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:36.985][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:36.986][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:36.986][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:36.988][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 06:31:36.989][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.990][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:31:36.991][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.992][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:36.993][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:36.994][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.995][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:36.996][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:36.997][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:31:36.998][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:36.999][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:37.000][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 06:31:37.001][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:37.001][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:37.002][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:37.003][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:37.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:37.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:37.006][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:37.007][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:37.008][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:37.009][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:37.010][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:37.011][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:37.012][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:37.013][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:37.014][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:37.015][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:37.016][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:37.017][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.099][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 06:31:37.100][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 06:31:37.102][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 06:31:37.103][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 06:31:37.105][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 06:31:37.106][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 06:31:37.107][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 06:31:37.109][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 06:31:37.110][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 06:31:37.112][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 06:31:37.113][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 06:31:37.114][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 06:31:37.116][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 06:31:37.117][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 06:31:37.118][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 06:31:37.120][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:31:37.121][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 06:31:37.123][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 06:31:37.124][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 06:31:37.125][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 06:31:37.127][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 06:31:37.128][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 06:31:37.129][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 06:31:37.130][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 06:31:37.132][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 06:31:37.133][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 06:31:37.134][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 06:31:37.136][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 06:31:37.137][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 06:31:37.138][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 06:31:37.140][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 06:31:37.141][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 06:31:37.142][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 06:31:37.143][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 06:31:37.145][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 06:31:37.146][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 06:31:37.147][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 06:31:37.148][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 06:31:37.150][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 06:31:37.151][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 06:31:37.152][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 06:31:37.154][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 06:31:37.155][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 06:31:37.156][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 06:31:37.158][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 06:31:37.159][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 06:31:37.161][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 06:31:37.162][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 06:31:37.163][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 06:31:37.165][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 06:31:37.166][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 06:31:37.167][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 06:31:37.169][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 06:31:37.170][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 06:31:37.171][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 06:31:37.172][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 06:31:37.174][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 06:31:37.175][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 06:31:37.176][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 06:31:37.178][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 06:31:37.179][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 06:31:37.180][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 06:31:37.182][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 06:31:37.183][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 06:31:37.184][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 06:31:37.186][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 06:31:37.187][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 06:31:37.188][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 06:31:37.189][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 06:31:37.191][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 06:31:37.192][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 06:31:37.194][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 06:31:37.195][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 06:31:37.196][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 06:31:37.198][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 06:31:37.199][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 06:31:37.200][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 06:31:37.202][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 06:31:37.203][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 06:31:37.204][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 06:31:37.206][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 06:31:37.207][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 06:31:37.209][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 06:31:37.210][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 06:31:37.212][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:31:37.213][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:37.213][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.215][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:37.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:37.324][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-01-20 06:31:37.326][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:37.328][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:37.329][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-20 06:31:37.330][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:37.330][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:37.331][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:37.332][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-01-20 06:31:37.333][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:37.334][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:37.335][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-01-20 06:31:37.336][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:37.337][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:37.338][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-01-20 06:31:37.339][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-01-20 06:31:37.340][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-01-20 06:31:37.341][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:37.342][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:37.342][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-01-20 06:31:37.343][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-01-20 06:31:37.344][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:37.345][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:37.345][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:37.346][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:37.347][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:37.348][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:37.349][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-20 06:31:37.349][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-01-20 06:31:37.350][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:37.351][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:37.352][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:37.353][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:37.354][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 06:31:37.356][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 06:31:37.357][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 06:31:37.359][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:31:37.362][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:37.363][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-01-20 06:31:37.364][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:37.366][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-20 06:31:37.367][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:37.368][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:37.369][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-01-20 06:31:37.370][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-01-20 06:31:37.371][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-20 06:31:37.371][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-01-20 06:31:37.372][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:37.373][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:37.374][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-01-20 06:31:37.375][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-01-20 06:31:37.376][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:37.377][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-20 06:31:37.378][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:37.379][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:37.381][private$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[2022-01-20 06:31:37.382][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:37.383][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-01-20 06:31:37.384][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:37.385][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2022-01-20 06:31:37.386][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:37.387][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:37.391][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:37.392][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:37.394][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:37.395][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:37.396][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:37.402][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:37.403][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:37.404][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:37.405][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-20 06:31:37.407][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2022-01-20 06:31:37.410][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:37.417][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2022-01-20 06:31:37.418][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:37.419][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:37.421][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2022-01-20 06:31:37.422][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-20 06:31:37.423][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:37.425][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-20 06:31:37.426][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2022-01-20 06:31:37.428][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:31:37.429][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2022-01-20 06:31:37.430][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:31:37.440][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-20 06:31:37.441][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-20 06:31:37.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:37.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:37.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:37.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:37.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:37.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:37.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:31:37.454][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.456][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.457][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.458][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.469][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:37.471][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:37.472][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.473][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.475][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:37.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:37.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.484][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:37.486][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:37.487][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.488][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.490][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:37.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:37.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:37.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:37.501][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.502][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:37.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:37.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.513][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:37.514][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:37.515][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.516][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:37.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:37.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.528][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:37.529][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:37.530][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.531][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.533][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:37.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:37.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.542][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:37.543][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:37.544][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.545][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.546][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:37.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:37.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.554][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:37.556][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:37.556][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.557][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.559][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:37.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:37.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.567][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:37.568][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:37.569][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.570][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.571][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:37.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:37.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.579][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:37.581][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:37.582][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.583][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.584][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:37.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:37.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.592][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:37.593][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:37.593][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.594][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.596][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:37.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:37.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.603][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.604][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.605][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.606][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.620][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:37.621][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:37.622][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.623][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:37.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:37.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.632][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:37.633][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:37.634][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.635][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.636][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:37.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:37.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.643][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:37.644][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:37.645][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.646][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.648][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:37.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:37.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.655][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:37.656][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:37.657][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.658][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.659][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:37.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:37.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.667][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-01-20 06:31:37.668][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:37.669][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.670][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.671][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-01-20 06:31:37.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:37.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.690][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:37.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:37.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.694][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:37.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:37.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.698][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:37.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:37.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.702][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:37.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:37.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.706][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:37.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:37.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.709][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:37.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:37.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:37.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:37.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:37.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:37.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:37.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:37.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:37.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:37.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:37.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:37.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:37.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:37.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.736][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:37.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:37.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.740][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:37.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:37.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.743][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:37.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:37.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.747][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:37.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:37.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.751][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:37.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:37.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.755][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:37.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:37.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.758][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:37.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:37.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.762][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:37.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:37.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.766][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:37.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:37.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.770][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:37.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:37.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.773][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:37.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:37.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.777][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:37.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:37.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.786][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:37.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:37.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:37.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:37.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.794][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:37.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:37.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:37.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:37.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.801][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:37.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:37.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.805][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:37.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:37.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.820][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:37.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:37.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.823][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:37.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:37.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.827][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:37.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:37.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:37.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:37.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:37.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:37.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:37.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:37.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.842][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:37.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:37.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.846][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:37.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:37.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.850][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:37.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:37.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.853][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:37.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:37.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.857][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:37.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:37.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.861][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:37.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:37.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.865][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:37.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:37.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.869][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:37.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:37.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.879][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:37.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:37.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.883][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-20 06:31:37.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.896][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.900][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-20 06:31:37.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:37.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.912][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:37.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:37.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:37.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:37.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:37.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:37.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:37.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:37.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:37.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:37.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.938][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:37.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:37.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.942][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:37.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:37.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.950][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:37.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:37.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:37.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:37.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:37.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:37.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:37.996][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2022-01-20 06:31:37.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:38.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:38.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:38.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:38.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:38.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:38.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:38.012][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-20 06:31:38.013][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-01-20 06:31:38.014][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-01-20 06:31:38.015][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 06:31:38.016][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.018][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.020][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-20 06:31:38.026][biodb::testContext] 
biodb.INFO [2022-01-20 06:31:38.027][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:31:38.028][biodb::testContext] Test context - Test search of entries
biodb.INFO [2022-01-20 06:31:38.029][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:31:38.030][biodb::testContext] 
biodb.INFO [2022-01-20 06:31:38.038][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:31:38.040][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 06:31:38.044][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:38.045][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 06:31:38.046][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 06:31:38.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.050][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 06:31:38.051][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 06:31:38.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.054][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 06:31:38.055][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 06:31:38.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.059][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 06:31:38.060][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 06:31:38.061][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 06:31:38.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.065][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 06:31:38.066][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 06:31:38.067][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 06:31:38.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.070][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 06:31:38.071][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 06:31:38.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.075][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 06:31:38.076][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 06:31:38.077][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 06:31:38.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.080][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 06:31:38.081][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 06:31:38.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.084][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 06:31:38.085][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 06:31:38.086][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 06:31:38.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.089][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:31:38.090][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 06:31:38.091][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 06:31:38.092][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 06:31:38.093][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 06:31:38.094][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 06:31:38.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.097][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 06:31:38.098][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 06:31:38.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.101][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 06:31:38.102][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 06:31:38.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.105][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 06:31:38.106][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 06:31:38.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.108][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[2022-01-20 06:31:38.109][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 06:31:38.110][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 06:31:38.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.113][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 06:31:38.114][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 06:31:38.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.117][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:31:38.118][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 06:31:38.123][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-20 06:31:38.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.126][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 06:31:38.127][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 06:31:38.128][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 06:31:38.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.132][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 06:31:38.133][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.134][self$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[2022-01-20 06:31:38.135][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.136][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:38.137][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.138][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.139][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.139][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.140][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:31:38.141][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:38.142][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.143][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 06:31:38.144][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:38.144][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.145][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.146][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:38.146][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:31:38.146][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:31:38.146][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:31:38.146][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:31:38.147][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:38.148][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:38.149][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:38.150][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:38.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:38.151][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:38.184][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.185][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.186][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:38.187][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:38.188][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.189][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.190][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 06:31:38.191][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.192][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:31:38.193][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.194][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:38.195][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.196][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.196][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.197][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.198][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:31:38.199][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:38.200][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.201][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 06:31:38.201][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:38.202][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.203][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.204][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:38.204][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:31:38.204][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:31:38.204][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:31:38.204][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:31:38.205][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:38.206][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:38.206][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:38.207][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:38.208][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:38.209][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:38.210][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.211][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.212][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:38.212][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:38.213][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.214][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.215][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 06:31:38.217][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.218][self$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[2022-01-20 06:31:38.219][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.220][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:38.220][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.221][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.222][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.223][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.224][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:31:38.225][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:38.226][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.227][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 06:31:38.228][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:38.229][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.230][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.231][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.231][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:38.232][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:38.233][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:38.234][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:38.235][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:38.236][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:38.236][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.237][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.238][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:38.239][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:38.240][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.241][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.242][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 06:31:38.244][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.244][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:31:38.245][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.246][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:38.247][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.248][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.249][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.250][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.251][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:31:38.252][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:38.252][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.253][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 06:31:38.254][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:38.255][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.256][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.257][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.257][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:38.258][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:38.259][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:38.260][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:38.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:38.261][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:38.262][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.263][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.264][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:38.265][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:38.266][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.266][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.268][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:38.268][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.325][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[2022-01-20 06:31:38.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.329][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[2022-01-20 06:31:38.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.333][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 06:31:38.340][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 06:31:38.341][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 06:31:38.342][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 06:31:38.343][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 06:31:38.345][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 06:31:38.346][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 06:31:38.347][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 06:31:38.348][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 06:31:38.349][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 06:31:38.350][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 06:31:38.351][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 06:31:38.353][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 06:31:38.354][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 06:31:38.355][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 06:31:38.356][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:31:38.357][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 06:31:38.358][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 06:31:38.359][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 06:31:38.360][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 06:31:38.362][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 06:31:38.363][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 06:31:38.364][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 06:31:38.365][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 06:31:38.366][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 06:31:38.367][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 06:31:38.368][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 06:31:38.370][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 06:31:38.371][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 06:31:38.372][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 06:31:38.373][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 06:31:38.374][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 06:31:38.375][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 06:31:38.376][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 06:31:38.378][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 06:31:38.379][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 06:31:38.380][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 06:31:38.381][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 06:31:38.382][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 06:31:38.383][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 06:31:38.384][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 06:31:38.386][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 06:31:38.387][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 06:31:38.388][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 06:31:38.389][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 06:31:38.390][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 06:31:38.392][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 06:31:38.393][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 06:31:38.394][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 06:31:38.395][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 06:31:38.396][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 06:31:38.397][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 06:31:38.398][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 06:31:38.400][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 06:31:38.401][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 06:31:38.402][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 06:31:38.403][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 06:31:38.404][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 06:31:38.405][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 06:31:38.407][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 06:31:38.408][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 06:31:38.409][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 06:31:38.410][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 06:31:38.411][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 06:31:38.412][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 06:31:38.413][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 06:31:38.415][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 06:31:38.416][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 06:31:38.417][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 06:31:38.418][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 06:31:38.419][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 06:31:38.420][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 06:31:38.422][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 06:31:38.423][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 06:31:38.424][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 06:31:38.425][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 06:31:38.426][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 06:31:38.427][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 06:31:38.428][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 06:31:38.430][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 06:31:38.431][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 06:31:38.432][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 06:31:38.433][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 06:31:38.434][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 06:31:38.436][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:31:38.437][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:38.437][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.439][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:38.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:38.537][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2022-01-20 06:31:38.538][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:38.540][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.541][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.542][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.543][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:38.543][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.544][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2022-01-20 06:31:38.545][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.546][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.547][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2022-01-20 06:31:38.548][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:38.549][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.550][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2022-01-20 06:31:38.551][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2022-01-20 06:31:38.552][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2022-01-20 06:31:38.553][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:38.554][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:38.554][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2022-01-20 06:31:38.554][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2022-01-20 06:31:38.555][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:38.556][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:38.557][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:38.558][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:38.559][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:38.560][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:38.561][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-20 06:31:38.561][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2022-01-20 06:31:38.562][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:38.562][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:38.563][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:38.564][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:38.566][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 06:31:38.567][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 06:31:38.569][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 06:31:38.570][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:31:38.573][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:38.574][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2022-01-20 06:31:38.575][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:38.577][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-20 06:31:38.578][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:38.579][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:38.580][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2022-01-20 06:31:38.581][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2022-01-20 06:31:38.582][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2022-01-20 06:31:38.582][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2022-01-20 06:31:38.583][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:38.584][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:38.584][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2022-01-20 06:31:38.585][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2022-01-20 06:31:38.586][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2022-01-20 06:31:38.588][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-20 06:31:38.589][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:38.590][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:38.591][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.14-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2022-01-20 06:31:38.592][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2022-01-20 06:31:38.593][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2022-01-20 06:31:38.594][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:38.595][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2022-01-20 06:31:38.596][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:38.597][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:38.603][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-01-20 06:31:38.604][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2022-01-20 06:31:38.605][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2022-01-20 06:31:38.607][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:38.609][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:38.610][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:38.611][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:38.612][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:38.617][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:38.618][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:38.619][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:38.620][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-20 06:31:38.621][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-20 06:31:38.621][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2022-01-20 06:31:38.623][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2022-01-20 06:31:38.624][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-20 06:31:38.625][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:38.627][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-20 06:31:38.628][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2022-01-20 06:31:38.630][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:31:38.631][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2022-01-20 06:31:38.632][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:31:38.641][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-20 06:31:38.643][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-20 06:31:38.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:38.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:38.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:38.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:38.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:38.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:38.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:31:38.659][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:38.660][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:38.661][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.662][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:38.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:38.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.671][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:38.672][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:38.673][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.674][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.675][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:38.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:38.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.683][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:38.684][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:38.685][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.686][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.687][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:38.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:38.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:38.696][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:38.697][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.697][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:38.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:38.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.706][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:38.707][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:38.708][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.709][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:38.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:38.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.718][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:38.719][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:38.720][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.720][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.722][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:38.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:38.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.730][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:38.731][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:38.731][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.732][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.734][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:38.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:38.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.741][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:38.742][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:38.743][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.744][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.746][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:38.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:38.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.753][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:38.754][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:38.755][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.756][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.757][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:38.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:38.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.765][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:38.766][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:38.767][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.767][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.769][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:38.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:38.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.777][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:38.778][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:38.778][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.779][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.781][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:38.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:38.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:38.789][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:38.790][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.791][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:38.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:38.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.800][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:38.801][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:38.802][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.803][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:38.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:38.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.812][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:38.813][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:38.814][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.814][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:38.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:38.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.827][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:38.828][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:38.829][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.830][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.832][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:38.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:38.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.839][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:38.840][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:38.841][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.841][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.843][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:38.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:38.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.850][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-01-20 06:31:38.851][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:38.852][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.853][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.854][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-01-20 06:31:38.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:38.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:38.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:38.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:38.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:38.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:38.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:38.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.872][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:38.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:38.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.876][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:38.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:38.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.879][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:38.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:38.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.883][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:38.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:38.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.886][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:38.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:38.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.890][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:38.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:38.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:38.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:38.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:38.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:38.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:38.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:38.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:38.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:38.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:38.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:38.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:38.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:38.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.915][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:38.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:38.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.918][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:38.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:38.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.922][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:38.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:38.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.925][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:38.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:38.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.929][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:38.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:38.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:38.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:38.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.936][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:38.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:38.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.940][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:38.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:38.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:38.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:38.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.947][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:38.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:38.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.951][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:38.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:38.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.954][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:38.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:38.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.958][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:38.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:38.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.961][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:38.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:38.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.965][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:38.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:38.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:38.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:38.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:38.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.975][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:38.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:38.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:38.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:38.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:38.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:38.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.991][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:38.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:38.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.994][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:38.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:38.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:38.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:38.998][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:38.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.001][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.019][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.023][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.026][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.030][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.033][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.037][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:39.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:39.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:39.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:39.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.044][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:39.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:39.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.047][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-20 06:31:39.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.054][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.061][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-20 06:31:39.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.073][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.091][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.095][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.102][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:39.131][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2022-01-20 06:31:39.132][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.136][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.139][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.143][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:39.151][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-20 06:31:39.152][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-20 06:31:39.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:39.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:39.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:39.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:39.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:39.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:39.159][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[2022-01-20 06:31:39.160][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2022-01-20 06:31:39.161][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2022-01-20 06:31:39.162][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:39.164][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2022-01-20 06:31:39.166][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2022-01-20 06:31:39.167][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:31:39.168][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2022-01-20 06:31:39.169][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:31:39.199][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2022-01-20 06:31:39.200][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2022-01-20 06:31:39.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:39.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:39.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:39.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:39.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:39.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:39.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:31:39.210][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.211][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.212][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.213][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.221][ef$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:39.222][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:39.223][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.224][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.225][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:39.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:39.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.233][ef$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:39.234][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:39.235][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.236][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.237][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:39.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:39.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.244][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:39.245][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:39.246][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.247][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:39.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:39.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.256][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:39.257][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:39.258][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.258][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:39.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:39.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.267][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.268][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.269][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.270][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.271][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.281][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.282][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.283][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.283][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.285][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.292][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:39.293][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:39.294][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.295][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.296][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:39.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:39.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.303][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:39.304][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:39.305][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.306][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.307][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:39.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:39.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.320][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:39.321][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:39.321][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.322][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.323][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:39.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:39.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.331][ef$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:39.332][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:39.333][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.333][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:39.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:39.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.342][ef$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.343][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.344][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.345][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.353][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.354][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.355][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.356][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.364][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.365][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.366][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.367][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.376][ef$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.377][ef$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.378][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.378][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.380][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.387][ef$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:39.388][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:39.389][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.390][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.391][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:39.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:39.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.399][ef$get] Asked field names are: super.class.
biodb.TRACE[2022-01-20 06:31:39.400][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:39.401][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.402][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.403][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2022-01-20 06:31:39.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:39.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.422][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:39.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:39.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.425][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:39.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:39.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.429][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:39.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:39.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.433][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:39.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:39.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.436][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:39.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:39.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.440][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2022-01-20 06:31:39.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2022-01-20 06:31:39.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:39.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:39.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:39.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:39.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:39.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:39.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:39.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:39.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:39.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:39.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:39.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2022-01-20 06:31:39.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.466][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:39.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:39.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.470][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:39.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:39.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.474][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:39.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:39.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.483][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:39.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:39.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.488][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:39.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:39.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.492][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:39.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2022-01-20 06:31:39.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.495][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:39.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:39.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.499][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:39.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:39.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.503][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:39.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2022-01-20 06:31:39.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.506][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.510][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.514][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.517][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:39.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:39.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.521][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:39.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:39.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.525][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:39.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:39.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:39.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:39.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:39.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2022-01-20 06:31:39.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2022-01-20 06:31:39.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.551][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.555][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.559][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:39.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:39.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.580][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.584][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.588][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.591][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:39.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.595][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:39.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:39.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.599][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:39.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:39.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.602][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2022-01-20 06:31:39.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2022-01-20 06:31:39.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.606][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-20 06:31:39.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.610][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.621][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2022-01-20 06:31:39.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2022-01-20 06:31:39.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.633][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.637][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.641][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.645][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:39.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:39.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.659][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.662][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.670][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:39.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:39.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:39.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:39.700][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2022-01-20 06:31:39.701][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.710][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.715][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.719][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:39.723][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-20 06:31:39.724][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2022-01-20 06:31:39.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:39.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:39.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:39.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:39.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:39.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:39.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:39.735][function(conn)] Found ids when searching for words "[1]: "and"": [2]: "HMDB0000001, HMDB0000002".
biodb.DEBUG[2022-01-20 06:31:39.744][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-01-20 06:31:39.745][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2022-01-20 06:31:39.746][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2022-01-20 06:31:39.748][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:39.750][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:39.751][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:39.753][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:39.754][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:39.776][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:39.777][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:39.778][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:39.779][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-20 06:31:39.781][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-20 06:31:39.782][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-20 06:31:39.784][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.788][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.792][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.796][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.800][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.804][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.808][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:39.812][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-20 06:31:39.813][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-20 06:31:39.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:39.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:39.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:39.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:39.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:39.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:39.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:31:39.822][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.826][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.830][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.834][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.853][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.858][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.862][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:39.866][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2022-01-20 06:31:39.867][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-20 06:31:39.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:39.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:39.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:39.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:39.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:39.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:39.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:39.875][function(conn)] Found ids when searching for words "[2]: "histidine, cerebrovascular"": [1]: "HMDB0000001".
biodb.DEBUG[2022-01-20 06:31:39.883][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2022-01-20 06:31:39.884][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2022-01-20 06:31:39.885][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2022-01-20 06:31:39.887][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:39.888][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:39.889][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2022-01-20 06:31:39.891][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2022-01-20 06:31:39.892][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2022-01-20 06:31:39.897][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2022-01-20 06:31:39.898][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2022-01-20 06:31:39.899][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2022-01-20 06:31:39.900][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2022-01-20 06:31:39.901][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2022-01-20 06:31:39.902][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2022-01-20 06:31:39.904][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.907][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.911][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.915][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.918][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.922][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.926][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:39.929][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2022-01-20 06:31:39.930][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2022-01-20 06:31:39.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:39.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:39.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:39.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:39.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:39.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:39.937][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.TRACE[2022-01-20 06:31:39.938][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.942][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.945][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.949][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.953][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.956][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:39.960][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2022-01-20 06:31:39.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2022-01-20 06:31:39.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:39.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:39.963][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2022-01-20 06:31:39.964][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2022-01-20 06:31:39.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:39.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:39.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:39.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:39.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:39.970][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:39.971][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[2022-01-20 06:31:39.972][function(conn)] Found ids when searching for words "[2]: "monoalkylamines, shiitakes"": [1]: "HMDB0000002".
biodb.INFO [2022-01-20 06:31:39.975][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-20 06:31:39.976][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2022-01-20 06:31:39.977][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2022-01-20 06:31:39.978][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 06:31:39.979][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:39.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:39.981][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:39.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:39.982][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:39.983][FUN] Functions in observer 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 
  9.354   0.397  10.584 

Example timings

biodbHmdb.Rcheck/biodbHmdb-Ex.timings

nameusersystemelapsed
HmdbMetabolitesConn1.6070.0721.681
HmdbMetabolitesEntry0.2320.0010.233